## Loading required package: usethis
## Loading required package: ggplot2
## Welcome! Want to learn more? See two factoextra-related books at https://goo.gl/ve3WBa
## 
## Attaching package: 'dplyr'
## The following objects are masked from 'package:stats':
## 
##     filter, lag
## The following objects are masked from 'package:base':
## 
##     intersect, setdiff, setequal, union
## Loading required package: limma
## Loading required package: BiocParallel
## Loading required package: scales
## Loading required package: Biobase
## Loading required package: BiocGenerics
## Loading required package: parallel
## 
## Attaching package: 'BiocGenerics'
## The following objects are masked from 'package:parallel':
## 
##     clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
##     clusterExport, clusterMap, parApply, parCapply, parLapply,
##     parLapplyLB, parRapply, parSapply, parSapplyLB
## The following object is masked from 'package:limma':
## 
##     plotMA
## The following objects are masked from 'package:dplyr':
## 
##     combine, intersect, setdiff, union
## The following objects are masked from 'package:stats':
## 
##     IQR, mad, sd, var, xtabs
## The following objects are masked from 'package:base':
## 
##     anyDuplicated, append, as.data.frame, basename, cbind, colnames,
##     dirname, do.call, duplicated, eval, evalq, Filter, Find, get, grep,
##     grepl, intersect, is.unsorted, lapply, Map, mapply, match, mget,
##     order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank,
##     rbind, Reduce, rownames, sapply, setdiff, sort, table, tapply,
##     union, unique, unsplit, which.max, which.min
## Welcome to Bioconductor
## 
##     Vignettes contain introductory material; view with
##     'browseVignettes()'. To cite Bioconductor, see
##     'citation("Biobase")', and for packages 'citation("pkgname")'.
## 
## Attaching package: 'variancePartition'
## The following object is masked from 'package:limma':
## 
##     classifyTestsF
## Loading required package: S4Vectors
## Loading required package: stats4
## 
## Attaching package: 'S4Vectors'
## The following objects are masked from 'package:dplyr':
## 
##     first, rename
## The following object is masked from 'package:base':
## 
##     expand.grid
## Loading required package: IRanges
## 
## Attaching package: 'IRanges'
## The following objects are masked from 'package:dplyr':
## 
##     collapse, desc, slice
## Loading required package: GenomicRanges
## Loading required package: GenomeInfoDb
## Loading required package: SummarizedExperiment
## Loading required package: MatrixGenerics
## Loading required package: matrixStats
## 
## Attaching package: 'matrixStats'
## The following objects are masked from 'package:Biobase':
## 
##     anyMissing, rowMedians
## The following object is masked from 'package:dplyr':
## 
##     count
## 
## Attaching package: 'MatrixGenerics'
## The following objects are masked from 'package:matrixStats':
## 
##     colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
##     colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
##     colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
##     colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
##     colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
##     colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
##     colWeightedMeans, colWeightedMedians, colWeightedSds,
##     colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
##     rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
##     rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
##     rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
##     rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
##     rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
##     rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
##     rowWeightedSds, rowWeightedVars
## The following object is masked from 'package:Biobase':
## 
##     rowMedians
## Loading required package: lattice
## Loading required package: survival
## Loading required package: Formula
## 
## Attaching package: 'Hmisc'
## The following object is masked from 'package:Biobase':
## 
##     contents
## The following objects are masked from 'package:dplyr':
## 
##     src, summarize
## The following objects are masked from 'package:base':
## 
##     format.pval, units
##   [1] "13-051-NA-IFNy"       "13-051-NA-LPS"        "13-051-NA-unstim"    
##   [4] "13-054-CC-IFNy"       "13-054-CC-LPS"        "13-054-CC-unstim"    
##   [7] "13-056-GFM-IFNy"      "13-056-GFM-LPS"       "13-056-GFM-TNFa"     
##  [10] "13-056-GFM-unstim"    "13-056-GTS-unstim"    "13-074-CC-IFNy"      
##  [13] "13-074-CC-LPS"        "13-077-CC-IFNy"       "13-077-CC-LPS"       
##  [16] "13-077-CC-unstim"     "13-087-CC-IFNy"       "13-087-CC-LPS"       
##  [19] "13-087-CC-unstim"     "13-095-CC-unstim"     "13-095-GFM-unstim"   
##  [22] "13-095-GTS-unstim"    "14-002-CC-LPS"        "14-002-CC-unstim"    
##  [25] "14-005-CC-LPS"        "14-005-CC-unstim"     "14-005-GFM-IFNy"     
##  [28] "14-005-GFM-LPS"       "14-005-GFM-R848"      "14-005-GFM-TNFa"     
##  [31] "14-005-GFM-unstim"    "14-005-GTS-LPS"       "14-005-GTS-unstim"   
##  [34] "14-010-CC-LPS"        "14-010-CC-unstim"     "14-015-CC-LPS"       
##  [37] "14-015-CC-unstim"     "14-015-GFM-LPS"       "14-015-GFM-unstim"   
##  [40] "14-015-GTS-LPS"       "14-015-GTS-unstim"    "14-029-CC-LPS"       
##  [43] "14-029-CC-unstim"     "14-029-GTS-LPS"       "14-029-GTS-unstim"   
##  [46] "14-046-CC-IFNy"       "14-046-CC-LPS"        "14-046-CC-unstim"    
##  [49] "14-046-GFM-DEX"       "14-046-GFM-IFNy"      "14-046-GFM-IL4"      
##  [52] "14-046-GFM-LPS"       "14-046-GFM-R848"      "14-046-GFM-TNFa"     
##  [55] "14-046-GFM-unstim"    "14-046-GTS-LPS"       "14-046-GTS-unstim"   
##  [58] "14-048-CC-IFNy"       "14-048-CC-LPS"        "14-048-CC-unstim"    
##  [61] "14-051-GFM-LPS"       "14-051-GFM-R848"      "14-053-CC-IFNy"      
##  [64] "14-053-CC-LPS"        "14-053-CC-unstim"     "14-055-CC-IFNy"      
##  [67] "14-055-CC-LPS"        "14-055-CC-unstim"     "14-055-GFM-DEX"      
##  [70] "14-055-GFM-IFNy"      "14-055-GFM-IL4"       "14-055-GFM-LPS"      
##  [73] "14-055-GFM-TNFa"      "14-055-GTS-LPS"       "14-063-CC-IFNy"      
##  [76] "14-063-CC-LPS"        "14-063-CC-unstim"     "14-063-GTS-unstim"   
##  [79] "14-069-GFM-DEX"       "14-069-GFM-IFNy"      "14-069-GFM-IL4"      
##  [82] "14-069-GFM-LPS"       "14-069-GFM-TNFa"      "14-069-GFM-unstim"   
##  [85] "14-069-GTS-IFNy"      "14-069-GTS-LPS"       "14-069-GTS-unstim"   
##  [88] "14-069-SVZ-LPS"       "14-069-SVZ-unstim"    "14-074-CC-LPS"       
##  [91] "14-074-CC-unstim"     "14-074-GFM-LPS"       "14-074-GFM-unstim"   
##  [94] "14-075-GFM-IFNy"      "14-075-GFM-LPS"       "14-075-GFM-TNFa"     
##  [97] "14-075-GFM-unstim"    "14-075-GTS-IFNy"      "14-075-GTS-LPS"      
## [100] "14-075-GTS-unstim"    "14-078-GFM-DEX"       "14-078-GFM-IL4"      
## [103] "14-078-GFM-LPS"       "14-078-GFM-unstim"    "15-018-GFM-ATP"      
## [106] "15-018-GFM-DEX"       "15-018-GFM-IL4"       "15-018-GFM-LPS"      
## [109] "15-018-GFM-unstim"    "15-021-THA-LPS"       "15-021-THA-unstim"   
## [112] "15-024-GFM_unstim"    "15-024-GFM-ATP"       "15-024-GFM-DEX"      
## [115] "15-024-GFM-IL4"       "15-024-GFM-LPS"       "15-024-GFM-unstim"   
## [118] "15-024-THA-unstim"    "15-032-GTS-LPS"       "15-032-GTS-unstim"   
## [121] "15-041-GFM-LPS"       "15-041-GFM-TNFa"      "15-055-GFM-DEX"      
## [124] "15-055-GFM-IL4"       "15-055-GFM-unstim"    "15-055-GTS-unstim"   
## [127] "15-089-GTS-LPS"       "15-089-GTS-unstim"    "15-089-THA-LPS"      
## [130] "15-089-THA-unstim"    "16-003-GFM-IFNy"      "16-003-GFM-LPS"      
## [133] "16-003-GFM-R848"      "16-003-GFM-TNFa"      "16-003-GFM-unstim"   
## [136] "16-003-GFS-IFNy"      "16-003-GFS-LPS"       "16-003-GFS-unstim"   
## [139] "16-003-SVZ-IFNy"      "16-003-SVZ-LPS"       "16-003-SVZ-R848"     
## [142] "16-003-SVZ-TNFa"      "16-003-SVZ-unstim"    "16-003-THA-IFNy"     
## [145] "16-003-THA-LPS"       "16-003-THA-unstim"    "16-027-GFM-unstim"   
## [148] "16-027-THA-LPS"       "16-027-THA-unstim"    "16-028-GFM-LPS"      
## [151] "16-028-GFM-unstim"    "16-028-GTS-LPS"       "16-028-GTS-unstim"   
## [154] "16-028-THA-LPS"       "16-028-THA-unstim"    "16-049-GFM-IFNy"     
## [157] "16-049-GFM-LPS"       "16-049-GFM-R848"      "16-049-GFM-TNFa"     
## [160] "16-049-GFM-unstim"    "16-049-GTS-IFNy"      "16-049-GTS-LPS"      
## [163] "16-049-GTS-unstim"    "16-049-SVZ-IFNy"      "16-049-SVZ-LPS"      
## [166] "16-049-SVZ-R848"      "16-049-SVZ-TNFa"      "16-049-SVZ-unstim"   
## [169] "16-049-THA-LPS"       "16-049-THA-unstim"    "16-062-GFM-IFNy"     
## [172] "16-062-GFM-LPS"       "16-062-GFM-R848"      "16-062-GFM-TNFa"     
## [175] "16-062-GFM-unstim"    "16-062-GTS-IFNy"      "16-062-GTS-LPS"      
## [178] "16-062-GTS-unstim"    "16-062-SVZ-IFNy"      "16-062-SVZ-LPS"      
## [181] "16-062-SVZ-R848"      "16-062-SVZ-TNFa"      "16-062-SVZ-unstim"   
## [184] "16-062-THA-IFNy"      "16-062-THA-LPS"       "16-062-THA-unstim"   
## [187] "16-074-GFM-unstim"    "16-080-SVZ-IFNy"      "16-080-SVZ-LPS"      
## [190] "16-080-SVZ-R848"      "16-080-SVZ-TNFa"      "16-080-SVZ-unstim"   
## [193] "16-082-SVZ-ATP"       "16-082-SVZ-IFNy"      "16-082-SVZ-LPS"      
## [196] "16-082-SVZ-R848"      "16-082-SVZ-TNFa"      "16-082-SVZ-unstim"   
## [199] "16-110-GFM-IFNy"      "16-110-GFM-LPS"       "16-110-GFM-R848"     
## [202] "16-110-GFM-TNFa"      "16-110-GFM-unstim"    "16-110-GTS-IFNy"     
## [205] "16-110-GTS-LPS"       "16-110-GTS-unstim"    "16-110-SVZ-IFNy"     
## [208] "16-110-SVZ-R848"      "16-110-SVZ-TNFa"      "16-110-SVZ-unstim"   
## [211] "16-110-THA-LPS"       "16-110-THA-unstim"    "16-112-GFM-IFNy"     
## [214] "16-112-GFM-LPS"       "16-112-GFM-TNFa"      "16-112-GFM-unstim"   
## [217] "16-112-GTS-IFNy"      "16-112-GTS-LPS"       "16-112-GTS-unstim"   
## [220] "16-112-SVZ-LPS"       "16-112-SVZ-unstim"    "16-112-THA-LPS"      
## [223] "16-112-THA-unstim"    "16-117-GFM-DEX"       "16-117-GFM-IFNy"     
## [226] "16-117-GFM-LPS"       "16-117-GFM-R848"      "16-117-GFM-TNFa"     
## [229] "16-117-GFM-unstim"    "16-117-GTS-unstim"    "16-117-SVZ-IFNy"     
## [232] "16-117-SVZ-LPS"       "16-117-SVZ-R848"      "16-117-SVZ-unstim"   
## [235] "16-117-THA-IFNy"      "16-117-THA-LPS"       "16-117-THA-unstim"   
## [238] "16-118-GFM-IFNy"      "16-118-GFM-LPS"       "16-118-GFM-R848"     
## [241] "16-118-GFM-TNFa"      "16-118-GFM-unstim"    "16-118-GTS-IFNy"     
## [244] "16-118-GTS-LPS"       "16-118-GTS-unstim"    "16-118-SVZ-IFNy"     
## [247] "16-118-SVZ-LPS"       "16-118-SVZ-R848"      "16-118-SVZ-TNFa"     
## [250] "16-118-SVZ-unstim"    "16-137-SVZ-LPS"       "16-137-SVZ-R848"     
## [253] "16-137-SVZ-TNFa"      "16-137-SVZ-unstim"    "17-003-GTS-IFNy"     
## [256] "17-003-GTS-LPS"       "17-003-GTS-unstim"    "17-003-SVZ-IFNy"     
## [259] "17-003-SVZ-LPS"       "17-003-SVZ-R848"      "17-003-SVZ-TNFa"     
## [262] "17-003-SVZ-unstim"    "17-003-THA-IFNy"      "17-003-THA-LPS"      
## [265] "17-003-THA-unstim"    "17-005-GFM-IFNy"      "17-005-GFM-R848"     
## [268] "17-005-GFM-TNFa"      "17-005-GTS-IFNy"      "17-005-SVZ-IFNy"     
## [271] "17-005-SVZ-LPS"       "17-005-SVZ-R848"      "17-005-SVZ-TNFa"     
## [274] "17-005-SVZ-unstim"    "17-013-GFM-LPS"       "17-013-GFM-unstim"   
## [277] "17-013-SVZ-IFNy"      "17-013-SVZ-LPS"       "17-013-SVZ-R848"     
## [280] "17-013-SVZ-TNFa"      "17-013-SVZ-unstim"    "17-017-GFM-IFNy"     
## [283] "17-017-GFM-R848"      "17-017-GFM-TNFa"      "17-017-GFM-unstim"   
## [286] "17-017-GTS-LPS"       "17-017-GTS-unstim"    "17-017-SVZ-IFNy"     
## [289] "17-017-SVZ-LPS"       "17-017-SVZ-R848"      "17-017-SVZ-TNFa"     
## [292] "17-017-SVZ-unstim"    "17-017-THA-LPS"       "17-021-SVZ-unstim"   
## [295] "17-029-GFM-LPS"       "17-029-GFM-unstim"    "17-029-GTS-LPS"      
## [298] "17-029-GTS-unstim"    "17-029-SVZ-IFNy"      "17-029-SVZ-LPS"      
## [301] "17-029-SVZ-R848"      "17-029-SVZ-TNFa"      "17-029-SVZ-unstim"   
## [304] "17-032-GTS-IFNy"      "17-032-GTS-LPS"       "17-032-GTS-unstim"   
## [307] "17-032-SVZ-IFNy"      "17-032-SVZ-LPS"       "17-032-SVZ-R848"     
## [310] "17-032-SVZ-TNFa"      "17-032-SVZ-unstim"    "17-032-THA-IFNy"     
## [313] "17-032-THA-LPS"       "17-032-THA-unstim"    "17-043-GFM-IFNy"     
## [316] "17-043-GFM-LPS"       "17-043-GFM-R848"      "17-043-GFM-TNFa"     
## [319] "17-043-GFM-unstim"    "17-043-GTS-unstim"    "17-043-SVZ-LPS"      
## [322] "17-043-SVZ-unstim"    "17-043-THA-LPS"       "17-043-THA-unstim"   
## [325] "17-074-GFM-LPS"       "17-074-GFM-unstim"    "17-074-THA-LPS"      
## [328] "17-074-THA-unstim"    "17-078-GFM-IFNy"      "17-078-GFM-LPS"      
## [331] "17-078-GFM-R848"      "17-078-GFM-TNFa"      "17-078-GFM-unstim"   
## [334] "17-078-SVZ-LPS"       "17-078-SVZ-unstim"    "17-090-SVZ-IFNy"     
## [337] "17-094-GFM-IFNy"      "17-094-GFM-LPS"       "17-094-GFM-R848"     
## [340] "17-094-GFM-TNFa"      "17-094-GFM-unstim"    "17-094-GTS-LPS"      
## [343] "17-094-GTS-unstim"    "17-094-SVZ-IFNy"      "17-094-SVZ-LPS"      
## [346] "17-094-SVZ-R848"      "17-094-SVZ-TNFa"      "17-094-SVZ-unstim"   
## [349] "17-094-THA-IFNy"      "17-094-THA-LPS"       "17-094-THA-unstim"   
## [352] "17-097-GFM-IFNy"      "17-097-GFM-LPS"       "17-097-GFM-R848"     
## [355] "17-097-GFM-TNFa"      "17-097-GFM-unstim"    "17-097-GTS-LPS"      
## [358] "17-097-GTS-unstim"    "17-097-SVZ-IFNy"      "17-097-SVZ-LPS"      
## [361] "17-097-SVZ-R848"      "17-097-SVZ-TNFa"      "17-097-SVZ-unstim"   
## [364] "17-099-GFM-IFNy"      "17-099-GFM-LPS"       "17-099-GFM-R848"     
## [367] "17-099-GFM-TNFa"      "17-099-GFM-unstim"    "17-099-GTS-IFNy"     
## [370] "17-099-GTS-LPS"       "17-099-GTS-unstim"    "17-099-SVZ-LPS"      
## [373] "17-099-SVZ-R848"      "17-099-SVZ-TNFa"      "17-099-SVZ-unstim"   
## [376] "17-099-THA-IFNy"      "17-099-THA-LPS"       "17-099-THA-unstim"   
## [379] "17-102-GFM-LPS"       "17-102-GFM-unstim"    "17-102-GTS-LPS"      
## [382] "17-102-GTS-unstim"    "17-102-SVZ-IFNy"      "17-102-SVZ-LPS"      
## [385] "17-102-SVZ-R848"      "17-102-SVZ-TNFa"      "17-102-SVZ-unstim"   
## [388] "17-102-THA-LPS"       "17-102-THA-unstim"    "17-124-GFM-LPS"      
## [391] "17-124-GFM-unstim"    "17-124-SVZ-IFNy"      "17-124-SVZ-LPS"      
## [394] "17-124-SVZ-R848"      "17-124-SVZ-TNFa"      "17-124-SVZ-unstim"   
## [397] "17-124-THA-IFNy"      "17-124-THA-LPS"       "17-124-THA-unstim"   
## [400] "17-136-GFM-IFNy"      "17-136-GFM-LPS"       "17-136-GFM-R848"     
## [403] "17-136-GFM-TNFa"      "17-136-GFM-unstim"    "17-136-SVZ-LPS"      
## [406] "17-136-SVZ-unstim"    "17-148-GTS-LPS"       "17-148-GTS-unstim"   
## [409] "17-148-SVZ-LPS"       "17-148-SVZ-unstim"    "18-010-GFM-LPS"      
## [412] "18-010-GFM-unstim"    "18-010-GTS-IFNy"      "18-010-GTS-LPS"      
## [415] "18-010-GTS-unstim"    "18-010-SVZ-IFNy"      "18-010-SVZ-LPS"      
## [418] "18-010-SVZ-R848"      "18-010-SVZ-TNFa"      "18-010-SVZ-unstim"   
## [421] "18-010-THA-IFNy"      "18-010-THA-LPS"       "18-010-THA-unstim"   
## [424] "18-018-GFM-ATP"       "18-018-GFM-DEX"       "18-018-GFM-IFNy"     
## [427] "18-018-GFM-TNFa"      "18-018-GFM-unstim"    "18-018-SVZ-IFNy"     
## [430] "18-018-SVZ-LPS"       "18-018-SVZ-TNFa"      "18-018-SVZ-unstim"   
## [433] "18-018-THA-unstim"    "18-0198-GFM-LPS"      "18-021-GFM-DEX"      
## [436] "18-021-GFM-LPS"       "18-021-GFM-unstim"    "18-021-GTS-LPS"      
## [439] "18-021-GTS-unstim"    "18-021-THA-LPS"       "18-021-THA-unstim"   
## [442] "18-039-SVZ-IFNy"      "18-039-SVZ-R848"      "18-039-SVZ-TNFa"     
## [445] "18-064-GFM-ATP"       "18-064-GFM-DEX"       "18-064-GFM-IFNy"     
## [448] "18-064-GFM-IL4"       "18-064-GFM-LPS"       "18-064-GFM-TNFa"     
## [451] "18-064-GFM-unstim"    "18-064-GTS-LPS"       "18-064-GTS-unstim"   
## [454] "18-064-THA-LPS"       "18-064-THA-unstim"    "18-074-GTS-LPS"      
## [457] "18-074-GTS-unstim"    "18-074-SVZ-IFNy"      "18-074-SVZ-LPS"      
## [460] "18-074-SVZ-R848"      "18-074-SVZ-TNFa"      "18-074-SVZ-unstim"   
## [463] "18-079-GFM-LPS"       "18-079-GFM-unstim"    "18-079-SVZ-IFNy"     
## [466] "18-079-SVZ-LPS"       "18-079-SVZ-R848"      "18-079-SVZ-TNFa"     
## [469] "18-105-GFM-DEX"       "18-105-GFM-LPS"       "18-105-GFM-unstim"   
## [472] "18-105-GTS-LPS"       "18-105-GTS-unstim"    "18-105-THA-LPS"      
## [475] "18-105-THA-unstim"    "18-112-GFM-ATP"       "18-112-GFM-DEX"      
## [478] "18-112-GFM-IFNy"      "18-112-GFM-LPS"       "18-112-GFM-unstim"   
## [481] "18-112-GTS-LPS"       "18-112-GTS-unstim"    "18-118-GFM-IL4"      
## [484] "MG-01-RNA"            "MG-02-RNA"            "MG-02-SVZ-RNA"       
## [487] "MG-03-MGF-RNA"        "MG-03-RNA"            "MG-04-SVZ-RNA"       
## [490] "MG-05-MGF-RNA"        "MG-07-SVZ-RNA"        "MG-08-CER-RNA"       
## [493] "MG-09-SVZ-RNA"        "MG-12-CER-RNA"        "MG-12-MGF-RNA"       
## [496] "MG-12-SVZ-RNA"        "MG-13-CER-RNA"        "MG-14-CER-RNA"       
## [499] "MG-14-MGF-RNA"        "MG-15-CER-RNA"        "MG-15-MGF-RNA"       
## [502] "MG-15-SN-RNA"         "MG-15-SVZ-RNA"        "MG-16-CER-RNA"       
## [505] "MG-16-MGF-RNA"        "MG-17-HIP-RNA"        "MG-17-MGF-RNA"       
## [508] "MG-17-SN-RNA"         "MG-17-SVZ-RNA"        "MG-18-HIP-RNA"       
## [511] "MG-18-SN-RNA"         "MG-18-SVZ-RNA"        "MG-19-HIP-RNA"       
## [514] "MG-19-MGF-RNA"        "MG-19-SN-RNA"         "MG-20-GFM-RNA"       
## [517] "MG-20-MGF-RNA"        "MG-20-SN-RNA"         "MG-21-MGF-RNA"       
## [520] "MG-22-HIP-RNA"        "MG-22-MGF-RNA"        "MG-22-SN-RNA"        
## [523] "MG-23-HIP-RNA"        "MG-23-MGF-RNA"        "MG-23-SN-RNA"        
## [526] "MG-24-HIP-RNA"        "MG-24-MGF-RNA"        "MG-24-SN-RNA"        
## [529] "MG-25-HIP-RNA"        "MG-25-MGF-RNA"        "MG-26-DLPFC-RNA"     
## [532] "MG-26-OCC-CORTEX-RNA" "MG-26-SN-RNA"
##   [1] "17-097-GTS-LPS"       "17-097-GTS-unstim"    "17-097-SVZ-IFNy"     
##   [4] "17-097-SVZ-LPS"       "17-097-SVZ-R848"      "17-097-SVZ-TNFa"     
##   [7] "17-097-SVZ-unstim"    "17-099-GFM-IFNy"      "17-099-GFM-LPS"      
##  [10] "17-099-GFM-R848"      "17-099-GFM-TNFa"      "17-099-GFM-unstim"   
##  [13] "17-099-GTS-IFNy"      "17-099-GTS-LPS"       "17-099-GTS-unstim"   
##  [16] "17-099-SVZ-LPS"       "17-099-SVZ-R848"      "17-099-SVZ-TNFa"     
##  [19] "17-099-SVZ-unstim"    "17-099-THA-IFNy"      "17-099-THA-LPS"      
##  [22] "17-099-THA-unstim"    "17-102-GFM-LPS"       "17-102-GFM-unstim"   
##  [25] "17-102-GTS-LPS"       "17-102-GTS-unstim"    "17-102-SVZ-IFNy"     
##  [28] "17-102-SVZ-LPS"       "17-102-SVZ-R848"      "17-102-SVZ-TNFa"     
##  [31] "17-102-SVZ-unstim"    "17-102-THA-LPS"       "17-102-THA-unstim"   
##  [34] "17-124-GFM-LPS"       "17-124-GFM-unstim"    "17-124-SVZ-IFNy"     
##  [37] "17-124-SVZ-LPS"       "17-124-SVZ-R848"      "17-124-SVZ-TNFa"     
##  [40] "17-124-SVZ-unstim"    "17-124-THA-IFNy"      "17-124-THA-LPS"      
##  [43] "17-124-THA-unstim"    "17-136-GFM-IFNy"      "17-136-GFM-LPS"      
##  [46] "17-136-GFM-R848"      "17-136-GFM-TNFa"      "17-136-GFM-unstim"   
##  [49] "17-136-SVZ-LPS"       "17-136-SVZ-unstim"    "17-148-GTS-LPS"      
##  [52] "17-148-GTS-unstim"    "17-148-SVZ-LPS"       "17-148-SVZ-unstim"   
##  [55] "18-010-GFM-LPS"       "18-010-GFM-unstim"    "18-010-GTS-IFNy"     
##  [58] "18-010-GTS-LPS"       "18-010-GTS-unstim"    "18-010-SVZ-IFNy"     
##  [61] "18-010-SVZ-LPS"       "18-010-SVZ-R848"      "18-010-SVZ-TNFa"     
##  [64] "18-010-SVZ-unstim"    "18-010-THA-IFNy"      "18-010-THA-LPS"      
##  [67] "18-010-THA-unstim"    "18-018-GFM-ATP"       "18-018-GFM-DEX"      
##  [70] "18-018-GFM-IFNy"      "18-018-GFM-TNFa"      "18-018-GFM-unstim"   
##  [73] "18-018-SVZ-IFNy"      "18-018-SVZ-LPS"       "18-018-SVZ-TNFa"     
##  [76] "18-018-SVZ-unstim"    "18-018-THA-unstim"    "18-0198-GFM-LPS"     
##  [79] "18-021-GFM-DEX"       "18-021-GFM-LPS"       "18-021-GFM-unstim"   
##  [82] "18-021-GTS-LPS"       "18-021-GTS-unstim"    "18-021-THA-LPS"      
##  [85] "18-021-THA-unstim"    "18-039-SVZ-IFNy"      "18-039-SVZ-R848"     
##  [88] "18-039-SVZ-TNFa"      "18-064-GFM-ATP"       "18-064-GFM-DEX"      
##  [91] "18-064-GFM-IFNy"      "18-064-GFM-IL4"       "18-064-GFM-LPS"      
##  [94] "18-064-GFM-TNFa"      "18-064-GFM-unstim"    "18-064-GTS-LPS"      
##  [97] "18-064-GTS-unstim"    "18-064-THA-LPS"       "18-064-THA-unstim"   
## [100] "18-074-GTS-LPS"       "18-074-GTS-unstim"    "18-074-SVZ-IFNy"     
## [103] "18-074-SVZ-LPS"       "18-074-SVZ-R848"      "18-074-SVZ-TNFa"     
## [106] "18-074-SVZ-unstim"    "18-079-GFM-LPS"       "18-079-GFM-unstim"   
## [109] "18-079-SVZ-IFNy"      "18-079-SVZ-LPS"       "18-079-SVZ-R848"     
## [112] "18-079-SVZ-TNFa"      "18-105-GFM-DEX"       "18-105-GFM-LPS"      
## [115] "18-105-GFM-unstim"    "18-105-GTS-LPS"       "18-105-GTS-unstim"   
## [118] "18-105-THA-LPS"       "18-105-THA-unstim"    "18-112-GFM-ATP"      
## [121] "18-112-GFM-DEX"       "18-112-GFM-IFNy"      "18-112-GFM-LPS"      
## [124] "18-112-GFM-unstim"    "18-112-GTS-LPS"       "18-112-GTS-unstim"   
## [127] "18-118-GFM-IL4"       "MG-01-RNA"            "MG-02-RNA"           
## [130] "MG-02-SVZ-RNA"        "MG-03-MGF-RNA"        "MG-03-RNA"           
## [133] "MG-04-SVZ-RNA"        "MG-05-MGF-RNA"        "MG-07-SVZ-RNA"       
## [136] "MG-08-CER-RNA"        "MG-09-SVZ-RNA"        "MG-12-CER-RNA"       
## [139] "MG-12-MGF-RNA"        "MG-12-SVZ-RNA"        "MG-13-CER-RNA"       
## [142] "MG-14-CER-RNA"        "MG-14-MGF-RNA"        "MG-15-CER-RNA"       
## [145] "MG-15-MGF-RNA"        "MG-15-SN-RNA"         "MG-15-SVZ-RNA"       
## [148] "MG-16-CER-RNA"        "MG-16-MGF-RNA"        "MG-17-HIP-RNA"       
## [151] "MG-17-MGF-RNA"        "MG-17-SN-RNA"         "MG-17-SVZ-RNA"       
## [154] "MG-18-HIP-RNA"        "MG-18-SN-RNA"         "MG-18-SVZ-RNA"       
## [157] "MG-19-HIP-RNA"        "MG-19-MGF-RNA"        "MG-19-SN-RNA"        
## [160] "MG-20-GFM-RNA"        "MG-20-MGF-RNA"        "MG-20-SN-RNA"        
## [163] "MG-21-MGF-RNA"        "MG-22-HIP-RNA"        "MG-22-MGF-RNA"       
## [166] "MG-22-SN-RNA"         "MG-23-HIP-RNA"        "MG-23-MGF-RNA"       
## [169] "MG-23-SN-RNA"         "MG-24-HIP-RNA"        "MG-24-MGF-RNA"       
## [172] "MG-24-SN-RNA"         "MG-25-HIP-RNA"        "MG-25-MGF-RNA"       
## [175] "MG-26-DLPFC-RNA"      "MG-26-OCC-CORTEX-RNA" "MG-26-SN-RNA"        
## [178] "16-062-SVZ-IFNy"      "16-062-SVZ-LPS"       "16-062-SVZ-R848"     
## [181] "16-062-SVZ-TNFa"      "16-062-SVZ-unstim"    "16-062-THA-IFNy"     
## [184] "16-062-THA-LPS"       "16-062-THA-unstim"    "16-074-GFM-unstim"   
## [187] "16-080-SVZ-IFNy"      "16-080-SVZ-LPS"       "16-080-SVZ-R848"     
## [190] "16-080-SVZ-TNFa"      "16-080-SVZ-unstim"    "16-082-SVZ-ATP"      
## [193] "16-082-SVZ-IFNy"      "16-082-SVZ-LPS"       "16-082-SVZ-R848"     
## [196] "16-082-SVZ-TNFa"      "16-082-SVZ-unstim"    "16-110-GFM-IFNy"     
## [199] "16-110-GFM-LPS"       "16-110-GFM-R848"      "16-110-GFM-TNFa"     
## [202] "16-110-GFM-unstim"    "16-110-GTS-IFNy"      "16-110-GTS-LPS"      
## [205] "16-110-GTS-unstim"    "16-110-SVZ-IFNy"      "16-110-SVZ-R848"     
## [208] "16-110-SVZ-TNFa"      "16-110-SVZ-unstim"    "16-110-THA-LPS"      
## [211] "16-110-THA-unstim"    "16-112-GFM-IFNy"      "16-112-GFM-LPS"      
## [214] "16-112-GFM-TNFa"      "16-112-GFM-unstim"    "16-112-GTS-IFNy"     
## [217] "16-112-GTS-LPS"       "16-112-GTS-unstim"    "16-112-SVZ-LPS"      
## [220] "16-112-SVZ-unstim"    "16-112-THA-LPS"       "16-112-THA-unstim"   
## [223] "16-117-GFM-DEX"       "16-117-GFM-IFNy"      "16-117-GFM-LPS"      
## [226] "16-117-GFM-R848"      "16-117-GFM-unstim"    "16-117-GTS-unstim"   
## [229] "16-117-SVZ-IFNy"      "16-117-SVZ-LPS"       "16-117-SVZ-R848"     
## [232] "16-117-SVZ-unstim"    "16-117-THA-IFNy"      "16-117-THA-LPS"      
## [235] "16-117-THA-unstim"    "16-118-GFM-IFNy"      "16-118-GFM-LPS"      
## [238] "16-118-GFM-R848"      "16-118-GFM-TNFa"      "16-118-GFM-unstim"   
## [241] "16-118-GTS-IFNy"      "16-118-GTS-LPS"       "16-118-GTS-unstim"   
## [244] "16-118-SVZ-IFNy"      "16-118-SVZ-LPS"       "16-118-SVZ-R848"     
## [247] "16-118-SVZ-TNFa"      "16-118-SVZ-unstim"    "16-137-SVZ-LPS"      
## [250] "16-137-SVZ-R848"      "16-137-SVZ-TNFa"      "16-137-SVZ-unstim"   
## [253] "17-003-GTS-IFNy"      "17-003-GTS-LPS"       "17-003-GTS-unstim"   
## [256] "17-003-SVZ-IFNy"      "17-003-SVZ-LPS"       "17-003-SVZ-R848"     
## [259] "17-003-SVZ-TNFa"      "17-003-SVZ-unstim"    "17-003-THA-LPS"      
## [262] "17-003-THA-unstim"    "17-005-GFM-IFNy"      "17-005-GFM-R848"     
## [265] "17-005-GFM-TNFa"      "17-005-GTS-IFNy"      "17-005-SVZ-IFNy"     
## [268] "17-005-SVZ-LPS"       "17-005-SVZ-R848"      "17-005-SVZ-TNFa"     
## [271] "17-005-SVZ-unstim"    "17-013-GFM-LPS"       "17-013-GFM-unstim"   
## [274] "17-013-SVZ-IFNy"      "17-013-SVZ-LPS"       "17-013-SVZ-R848"     
## [277] "17-013-SVZ-TNFa"      "17-013-SVZ-unstim"    "17-017-GFM-IFNy"     
## [280] "17-017-GFM-R848"      "17-017-GFM-TNFa"      "17-017-GFM-unstim"   
## [283] "17-017-GTS-LPS"       "17-017-GTS-unstim"    "17-017-SVZ-IFNy"     
## [286] "17-017-SVZ-LPS"       "17-017-SVZ-R848"      "17-017-SVZ-TNFa"     
## [289] "17-017-SVZ-unstim"    "17-017-THA-LPS"       "17-021-SVZ-unstim"   
## [292] "17-029-GFM-LPS"       "17-029-GFM-unstim"    "17-029-GTS-LPS"      
## [295] "17-029-GTS-unstim"    "17-029-SVZ-IFNy"      "17-029-SVZ-LPS"      
## [298] "17-029-SVZ-R848"      "17-029-SVZ-TNFa"      "17-029-SVZ-unstim"   
## [301] "17-032-GTS-IFNy"      "17-032-GTS-LPS"       "17-032-GTS-unstim"   
## [304] "17-032-SVZ-IFNy"      "17-032-SVZ-LPS"       "17-032-SVZ-R848"     
## [307] "17-032-SVZ-TNFa"      "17-032-SVZ-unstim"    "17-032-THA-IFNy"     
## [310] "17-032-THA-LPS"       "17-032-THA-unstim"    "17-043-GFM-IFNy"     
## [313] "17-043-GFM-LPS"       "17-043-GFM-R848"      "17-043-GFM-TNFa"     
## [316] "17-043-GFM-unstim"    "17-043-GTS-unstim"    "17-043-SVZ-LPS"      
## [319] "17-043-SVZ-unstim"    "17-043-THA-LPS"       "17-043-THA-unstim"   
## [322] "17-074-GFM-LPS"       "17-074-GFM-unstim"    "17-074-THA-LPS"      
## [325] "17-074-THA-unstim"    "17-078-GFM-IFNy"      "17-078-GFM-LPS"      
## [328] "17-078-GFM-R848"      "17-078-GFM-TNFa"      "17-078-GFM-unstim"   
## [331] "17-078-SVZ-LPS"       "17-078-SVZ-unstim"    "17-090-SVZ-IFNy"     
## [334] "17-094-GFM-IFNy"      "17-094-GFM-LPS"       "17-094-GFM-R848"     
## [337] "17-094-GFM-TNFa"      "17-094-GFM-unstim"    "17-094-GTS-LPS"      
## [340] "17-094-GTS-unstim"    "17-094-SVZ-IFNy"      "17-094-SVZ-LPS"      
## [343] "17-094-SVZ-R848"      "17-094-SVZ-TNFa"      "17-094-SVZ-unstim"   
## [346] "17-094-THA-IFNy"      "17-094-THA-LPS"       "17-094-THA-unstim"   
## [349] "17-097-GFM-IFNy"      "17-097-GFM-LPS"       "17-097-GFM-R848"     
## [352] "17-097-GFM-TNFa"      "17-097-GFM-unstim"    "13-051-NA-IFNy"      
## [355] "13-051-NA-LPS"        "13-051-NA-unstim"     "13-054-CC-IFNy"      
## [358] "13-054-CC-LPS"        "13-054-CC-unstim"     "13-056-GFM-IFNy"     
## [361] "13-056-GFM-LPS"       "13-056-GFM-TNFa"      "13-056-GFM-unstim"   
## [364] "13-056-GTS-unstim"    "13-074-CC-LPS"        "13-077-CC-IFNy"      
## [367] "13-077-CC-LPS"        "13-077-CC-unstim"     "13-087-CC-IFNy"      
## [370] "13-087-CC-LPS"        "13-087-CC-unstim"     "13-095-CC-unstim"    
## [373] "13-095-GFM-unstim"    "13-095-GTS-unstim"    "14-002-CC-LPS"       
## [376] "14-002-CC-unstim"     "14-005-CC-unstim"     "14-005-GFM-LPS"      
## [379] "14-005-GFM-TNFa"      "14-005-GFM-unstim"    "14-005-GTS-LPS"      
## [382] "14-005-GTS-unstim"    "14-010-CC-LPS"        "14-010-CC-unstim"    
## [385] "14-015-CC-LPS"        "14-015-CC-unstim"     "14-015-GFM-LPS"      
## [388] "14-015-GFM-unstim"    "14-015-GTS-LPS"       "14-015-GTS-unstim"   
## [391] "14-029-CC-LPS"        "14-029-CC-unstim"     "14-029-GTS-LPS"      
## [394] "14-046-CC-IFNy"       "14-046-CC-unstim"     "14-046-GFM-IFNy"     
## [397] "14-046-GFM-IL4"       "14-046-GFM-LPS"       "14-046-GFM-TNFa"     
## [400] "14-046-GFM-unstim"    "14-046-GTS-LPS"       "14-046-GTS-unstim"   
## [403] "14-048-CC-IFNy"       "14-048-CC-LPS"        "14-048-CC-unstim"    
## [406] "14-051-GFM-LPS"       "14-051-GFM-R848"      "14-053-CC-IFNy"      
## [409] "14-053-CC-LPS"        "14-053-CC-unstim"     "14-055-CC-IFNy"      
## [412] "14-055-CC-LPS"        "14-055-CC-unstim"     "14-055-GFM-DEX"      
## [415] "14-055-GFM-IFNy"      "14-055-GFM-IL4"       "14-055-GFM-LPS"      
## [418] "14-055-GFM-TNFa"      "14-055-GTS-LPS"       "14-063-CC-IFNy"      
## [421] "14-063-CC-LPS"        "14-063-CC-unstim"     "14-069-GFM-DEX"      
## [424] "14-069-GFM-IFNy"      "14-069-GFM-IL4"       "14-069-GFM-LPS"      
## [427] "14-069-GFM-TNFa"      "14-069-GFM-unstim"    "14-069-GTS-IFNy"     
## [430] "14-069-GTS-LPS"       "14-069-GTS-unstim"    "14-069-SVZ-LPS"      
## [433] "14-069-SVZ-unstim"    "14-074-CC-LPS"        "14-074-CC-unstim"    
## [436] "14-074-GFM-LPS"       "14-074-GFM-unstim"    "14-075-GFM-IFNy"     
## [439] "14-075-GFM-LPS"       "14-075-GFM-TNFa"      "14-075-GFM-unstim"   
## [442] "14-075-GTS-IFNy"      "14-075-GTS-LPS"       "14-075-GTS-unstim"   
## [445] "14-078-GFM-DEX"       "14-078-GFM-LPS"       "14-078-GFM-unstim"   
## [448] "15-018-GFM-ATP"       "15-018-GFM-DEX"       "15-018-GFM-IL4"      
## [451] "15-018-GFM-LPS"       "15-018-GFM-unstim"    "15-021-THA-LPS"      
## [454] "15-021-THA-unstim"    "15-024-GFM_unstim"    "15-024-GFM-ATP"      
## [457] "15-024-GFM-DEX"       "15-024-GFM-IL4"       "15-024-GFM-LPS"      
## [460] "15-024-THA-unstim"    "15-032-GTS-LPS"       "15-032-GTS-unstim"   
## [463] "15-041-GFM-LPS"       "15-041-GFM-TNFa"      "15-055-GFM-DEX"      
## [466] "15-055-GFM-IL4"       "15-055-GFM-unstim"    "15-055-GTS-unstim"   
## [469] "15-089-GTS-LPS"       "15-089-GTS-unstim"    "15-089-THA-LPS"      
## [472] "15-089-THA-unstim"    "16-003-GFM-IFNy"      "16-003-GFM-LPS"      
## [475] "16-003-GFM-R848"      "16-003-GFM-TNFa"      "16-003-GFM-unstim"   
## [478] "16-003-GFS-IFNy"      "16-003-GFS-LPS"       "16-003-GFS-unstim"   
## [481] "16-003-SVZ-IFNy"      "16-003-SVZ-LPS"       "16-003-SVZ-R848"     
## [484] "16-003-SVZ-TNFa"      "16-003-SVZ-unstim"    "16-003-THA-IFNy"     
## [487] "16-003-THA-LPS"       "16-003-THA-unstim"    "16-027-GFM-unstim"   
## [490] "16-027-THA-LPS"       "16-027-THA-unstim"    "16-028-GFM-LPS"      
## [493] "16-028-GFM-unstim"    "16-028-GTS-LPS"       "16-028-GTS-unstim"   
## [496] "16-028-THA-LPS"       "16-028-THA-unstim"    "16-049-GFM-IFNy"     
## [499] "16-049-GFM-LPS"       "16-049-GFM-R848"      "16-049-GFM-TNFa"     
## [502] "16-049-GFM-unstim"    "16-049-GTS-IFNy"      "16-049-GTS-LPS"      
## [505] "16-049-GTS-unstim"    "16-049-SVZ-IFNy"      "16-049-SVZ-LPS"      
## [508] "16-049-SVZ-R848"      "16-049-SVZ-TNFa"      "16-049-SVZ-unstim"   
## [511] "16-049-THA-LPS"       "16-049-THA-unstim"    "16-062-GFM-IFNy"     
## [514] "16-062-GFM-LPS"       "16-062-GFM-R848"      "16-062-GFM-TNFa"     
## [517] "16-062-GFM-unstim"    "16-062-GTS-IFNy"      "16-062-GTS-LPS"      
## [520] "16-062-GTS-unstim"    "13-074-CC-IFNy"       "14-005-CC-LPS"       
## [523] "14-005-GFM-IFNy"      "14-005-GFM-R848"      "14-029-GTS-unstim"   
## [526] "14-046-CC-LPS"        "14-046-GFM-DEX"       "14-046-GFM-R848"     
## [529] "14-063-GTS-unstim"    "14-078-GFM-IL4"       "15-024-GFM-unstim"   
## [532] "16-117-GFM-TNFa"      "17-003-THA-IFNy"
##                    13-051-NA-IFNy 13-051-NA-LPS 13-051-NA-unstim 13-054-CC-IFNy
## ENSG00000000003.14       2.703016      2.488331         1.137021      0.9850463
## ENSG00000000419.12       4.134355      4.722128         4.798676      5.3955683
## ENSG00000000457.14       5.128996      5.267474         4.128414      4.0206702
## ENSG00000000460.17       3.263286      3.148255         2.309817      3.6780686
## ENSG00000000938.13       8.039083      7.861438         8.315557      7.1320816
## ENSG00000000971.15       4.528986      4.108483         3.377072      3.6173145
##                    13-054-CC-LPS 13-054-CC-unstim 13-056-GFM-IFNy
## ENSG00000000003.14      1.690535         2.202149        2.185683
## ENSG00000000419.12      5.020036         4.996145        5.645115
## ENSG00000000457.14      4.479990         4.072720        4.836178
## ENSG00000000460.17      2.637955         3.306269        3.833201
## ENSG00000000938.13      6.579599         6.572133        7.280615
## ENSG00000000971.15      2.934461         3.397699        4.028958
##                    13-056-GFM-LPS 13-056-GFM-TNFa 13-056-GFM-unstim
## ENSG00000000003.14       2.574796       0.4419907         0.6829548
## ENSG00000000419.12       5.259295       5.7025182         5.6539758
## ENSG00000000457.14       5.136675       3.7723579         4.1952966
## ENSG00000000460.17       2.989834       1.1858646         2.9911780
## ENSG00000000938.13       6.851364       7.4754137         7.2528104
## ENSG00000000971.15       4.811836       2.9780436         4.0179391
##                    13-056-GTS-unstim 13-074-CC-IFNy 13-074-CC-LPS
## ENSG00000000003.14         0.3560764       2.886215      1.924794
## ENSG00000000419.12         5.8079215       5.359151      4.769143
## ENSG00000000457.14         3.8877218       5.893534      5.476590
## ENSG00000000460.17         2.1684957       3.347996      2.165802
## ENSG00000000938.13         7.2749397       6.056140      6.304566
## ENSG00000000971.15         3.1203050       4.686445      4.137788
##                    13-077-CC-IFNy 13-077-CC-LPS 13-077-CC-unstim 13-087-CC-IFNy
## ENSG00000000003.14       2.861428     -2.674509         1.557637       4.599430
## ENSG00000000419.12       5.874564      5.669787         5.530871       5.361511
## ENSG00000000457.14       4.090341      4.858431         3.810025       3.523230
## ENSG00000000460.17       1.494831      2.940201         1.718102       2.171921
## ENSG00000000938.13       6.796198      5.852968         6.554983       6.866856
## ENSG00000000971.15       4.398694      4.793096         3.913118       3.211504
##                    13-087-CC-LPS 13-087-CC-unstim 13-095-CC-unstim
## ENSG00000000003.14     4.5223854        5.2817712         3.983237
## ENSG00000000419.12     4.8327255        5.1487097         3.983237
## ENSG00000000457.14     3.9659921        3.9943815         6.051833
## ENSG00000000460.17    -0.1214708        0.6251477         4.242084
## ENSG00000000938.13     6.6987082        6.5819272         5.688494
## ENSG00000000971.15    -0.1214708        3.0098116         6.305165
##                    13-095-GFM-unstim 13-095-GTS-unstim 14-002-CC-LPS
## ENSG00000000003.14          3.770965         2.1144129      1.803179
## ENSG00000000419.12          2.186002        -1.6297482      4.937035
## ENSG00000000457.14          4.680767         0.5718857      4.166194
## ENSG00000000460.17          4.250133         0.6921799      2.181690
## ENSG00000000938.13          5.520986         0.9063047      6.133100
## ENSG00000000971.15          5.819750         3.5640236      3.524025
##                    14-002-CC-unstim 14-005-CC-LPS 14-005-CC-unstim
## ENSG00000000003.14        0.6332806      3.476047         2.849096
## ENSG00000000419.12        5.5215555      5.299667         5.303272
## ENSG00000000457.14        4.1830446      4.463396         5.099572
## ENSG00000000460.17        2.9719793      2.457609         2.851402
## ENSG00000000938.13        6.0595454      6.512787         6.233146
## ENSG00000000971.15        3.4166567      4.464551         4.637197
##                    14-005-GFM-IFNy 14-005-GFM-LPS 14-005-GFM-R848
## ENSG00000000003.14        3.191366       1.688987        3.544467
## ENSG00000000419.12        4.903241       5.727122        4.993225
## ENSG00000000457.14        5.016801       3.446417        4.668079
## ENSG00000000460.17        2.740738       2.250866        2.882217
## ENSG00000000938.13        6.012865       7.500018        6.539585
## ENSG00000000971.15        5.252248       3.179313        5.487603
##                    14-005-GFM-TNFa 14-005-GFM-unstim 14-005-GTS-LPS
## ENSG00000000003.14        2.381458          3.552493       4.091644
## ENSG00000000419.12        4.814418          5.285554       4.519065
## ENSG00000000457.14        5.592886          5.413214       6.667290
## ENSG00000000460.17        2.727044          4.087739       2.422696
## ENSG00000000938.13        6.513487          6.425189       5.423487
## ENSG00000000971.15        4.707229          5.331724       6.053842
##                    14-005-GTS-unstim 14-010-CC-LPS 14-010-CC-unstim
## ENSG00000000003.14          3.475387      2.536135        0.2320698
## ENSG00000000419.12          5.545776      4.811142        5.2604782
## ENSG00000000457.14          5.792360      5.130684        4.1718093
## ENSG00000000460.17          3.233629      2.647167        1.9898689
## ENSG00000000938.13          6.197853      6.443026        6.1671009
## ENSG00000000971.15          4.946017      4.462135        2.7950060
##                    14-015-CC-LPS 14-015-CC-unstim 14-015-GFM-LPS
## ENSG00000000003.14      1.591664         2.371416       2.023818
## ENSG00000000419.12      5.498554         5.127922       6.096763
## ENSG00000000457.14      4.290725         4.728243       3.504413
## ENSG00000000460.17      2.806646         2.610944       1.890116
## ENSG00000000938.13      6.428911         6.469129       5.872242
## ENSG00000000971.15      3.873234         3.769966       4.333416
##                    14-015-GFM-unstim 14-015-GTS-LPS 14-015-GTS-unstim
## ENSG00000000003.14          2.718892       3.347980          2.649935
## ENSG00000000419.12          5.674692       6.050884          5.641322
## ENSG00000000457.14          5.226183       5.254785          5.243118
## ENSG00000000460.17          3.150745       3.222799          3.553340
## ENSG00000000938.13          5.595620       5.187044          5.675470
## ENSG00000000971.15          4.731275       5.307338          4.857530
##                    14-029-CC-LPS 14-029-CC-unstim 14-029-GTS-LPS
## ENSG00000000003.14      2.001843         3.212359      0.6742464
## ENSG00000000419.12      4.648360         5.231899      3.7098703
## ENSG00000000457.14      4.545149         5.250029      4.0065247
## ENSG00000000460.17      3.951594         3.389378      3.6168547
## ENSG00000000938.13      6.692862         6.209076      4.9581682
## ENSG00000000971.15      2.208294         1.678927      1.2398436
##                    14-029-GTS-unstim 14-046-CC-IFNy 14-046-CC-LPS
## ENSG00000000003.14          2.131856     0.03154638     0.8343766
## ENSG00000000419.12          4.789348     4.69785742     5.3066905
## ENSG00000000457.14          3.939329     4.88401530     3.2837900
## ENSG00000000460.17          3.805575     2.23661991     1.3069252
## ENSG00000000938.13          6.091732     7.22233939     7.2453561
## ENSG00000000971.15          2.430767    -5.64087896    -0.4238408
##                    14-046-CC-unstim 14-046-GFM-DEX 14-046-GFM-IFNy
## ENSG00000000003.14        0.4989829     -5.6569696       -4.594811
## ENSG00000000419.12        5.4739242     -0.2307049        3.193091
## ENSG00000000457.14        2.6239861     -0.9020821       -1.053792
## ENSG00000000460.17        2.2958688     -4.0720071        2.025189
## ENSG00000000938.13        6.8212790      6.3712818        5.855369
## ENSG00000000971.15        0.8150104     -5.6569696       -4.594811
##                    14-046-GFM-IL4 14-046-GFM-LPS 14-046-GFM-R848
## ENSG00000000003.14      -5.143817      -5.034147      -5.2674232
## ENSG00000000419.12       1.975124      -1.127256      -0.5125357
## ENSG00000000457.14       1.821967      -1.039567       1.1419677
## ENSG00000000460.17       1.231222      -1.703588      -1.1799604
## ENSG00000000938.13       5.258129       4.806631       6.1551672
## ENSG00000000971.15      -5.143817      -5.034147      -5.2674232
##                    14-046-GFM-TNFa 14-046-GFM-unstim 14-046-GTS-LPS
## ENSG00000000003.14       -5.496025          4.003151     -0.2240105
## ENSG00000000419.12        2.999830          3.266186      5.1821266
## ENSG00000000457.14       -2.036593          6.158901      3.6718696
## ENSG00000000460.17        1.324154          3.576526      1.6338435
## ENSG00000000938.13        5.577447          3.266186      7.0639474
## ENSG00000000971.15       -3.911062          5.824181     -1.3862819
##                    14-046-GTS-unstim 14-048-CC-IFNy 14-048-CC-LPS
## ENSG00000000003.14         -4.932268      -1.451107      1.012420
## ENSG00000000419.12          2.398649       5.821290      5.113579
## ENSG00000000457.14         -4.932268       2.550335      3.084665
## ENSG00000000460.17         -3.347305       1.339109      2.589563
## ENSG00000000938.13          5.526139       6.623926      7.255723
## ENSG00000000971.15         -4.932268       1.630687      2.858249
##                    14-048-CC-unstim 14-051-GFM-LPS 14-051-GFM-R848
## ENSG00000000003.14        0.5573447      -0.466085        1.213434
## ENSG00000000419.12        5.7531716       5.067894        5.165768
## ENSG00000000457.14        3.6782159       5.492294        3.694526
## ENSG00000000460.17        3.1203967       3.097073        3.356436
## ENSG00000000938.13        7.0174890       6.617837        7.437629
## ENSG00000000971.15        2.8281986       4.518808        3.363994
##                    14-053-CC-IFNy 14-053-CC-LPS 14-053-CC-unstim 14-055-CC-IFNy
## ENSG00000000003.14      -0.811391     -2.546827         3.176128       2.837213
## ENSG00000000419.12       4.952375      5.067214         5.271286       5.208469
## ENSG00000000457.14       4.723279      3.722920         4.921985       5.443552
## ENSG00000000460.17       2.123021      3.105555         2.246101       3.010757
## ENSG00000000938.13       8.178871      7.796763         6.137359       6.202394
## ENSG00000000971.15      -3.981316     -4.421296         5.444617       4.035570
##                    14-055-CC-LPS 14-055-CC-unstim 14-055-GFM-DEX
## ENSG00000000003.14      2.619787         1.781024     0.07941692
## ENSG00000000419.12      4.985437         5.216410     5.41533711
## ENSG00000000457.14      5.311322         5.228723     3.49790420
## ENSG00000000460.17      2.105214         3.227520     3.56998705
## ENSG00000000938.13      6.466242         6.173341     8.06588571
## ENSG00000000971.15      4.617566         4.298872    -1.04833863
##                    14-055-GFM-IFNy 14-055-GFM-IL4 14-055-GFM-LPS
## ENSG00000000003.14      -0.8881120      0.6414972     -1.2428198
## ENSG00000000419.12       5.2941641      5.8179313      5.1106663
## ENSG00000000457.14       4.3960567      3.3662997      3.9630298
## ENSG00000000460.17       3.1695446      3.3737916      2.1033188
## ENSG00000000938.13       7.2305820      7.3652970      7.6377056
## ENSG00000000971.15       0.1458354     -1.0843279     -0.1883721
##                    14-055-GFM-TNFa 14-055-GTS-LPS 14-063-CC-IFNy 14-063-CC-LPS
## ENSG00000000003.14       -2.019848      1.5536481       1.118984      1.035872
## ENSG00000000419.12        5.454985      4.3728163       5.301509      5.005499
## ENSG00000000457.14        3.816077      4.5122171       5.122112      3.421027
## ENSG00000000460.17        2.907838     -0.4163589       2.900951      2.437867
## ENSG00000000938.13        7.571986      7.1738547       7.407303      7.099088
## ENSG00000000971.15       -1.282882      1.4899894       3.358414      2.338435
##                    14-063-CC-unstim 14-063-GTS-unstim 14-069-GFM-DEX
## ENSG00000000003.14         2.342197          5.189637      0.8056077
## ENSG00000000419.12         4.881931          2.173335      5.2945434
## ENSG00000000457.14         4.501396          5.466384      3.7388370
## ENSG00000000460.17         2.887433          4.419328      2.5933441
## ENSG00000000938.13         6.998821          3.843186      7.8086784
## ENSG00000000971.15         3.653399          7.375681      3.4122653
##                    14-069-GFM-IFNy 14-069-GFM-IL4 14-069-GFM-LPS
## ENSG00000000003.14        1.096509       1.407015      0.7504073
## ENSG00000000419.12        5.832413       6.284760      5.7370859
## ENSG00000000457.14        4.855163       4.214370      3.9918886
## ENSG00000000460.17        1.703926       2.709578      1.2002405
## ENSG00000000938.13        6.768934       6.190123      7.0860604
## ENSG00000000971.15        2.891689       3.018030      2.9667252
##                    14-069-GFM-TNFa 14-069-GFM-unstim 14-069-GTS-IFNy
## ENSG00000000003.14      -0.1329336        -2.7139108        3.623823
## ENSG00000000419.12       5.7866308         6.1284395        5.132836
## ENSG00000000457.14       3.4186910         3.4047535        5.976060
## ENSG00000000460.17       1.9224254         1.7354305        4.062525
## ENSG00000000938.13       7.2849189         7.0281179        5.280935
## ENSG00000000971.15       2.4089602         0.9105801        5.756273
##                    14-069-GTS-LPS 14-069-GTS-unstim 14-069-SVZ-LPS
## ENSG00000000003.14       4.210235          2.478605       1.264342
## ENSG00000000419.12       4.210235          5.681889       5.373775
## ENSG00000000457.14       6.047659          3.995682       2.772881
## ENSG00000000460.17       4.287283          2.909876       1.765809
## ENSG00000000938.13       5.901131          5.808107       7.235636
## ENSG00000000971.15       5.725385          5.430350       1.785174
##                    14-069-SVZ-unstim 14-074-CC-LPS 14-074-CC-unstim
## ENSG00000000003.14        -0.2394152      2.792466         1.004483
## ENSG00000000419.12         5.3248346      5.294966         5.862464
## ENSG00000000457.14         3.5074633      4.831474         4.889189
## ENSG00000000460.17         2.2530452      2.794602         2.087034
## ENSG00000000938.13         6.9076558      7.628166         7.254518
## ENSG00000000971.15         1.6211817      3.652288         3.984305
##                    14-074-GFM-LPS 14-074-GFM-unstim 14-075-GFM-IFNy
## ENSG00000000003.14       4.841819          2.320704        2.508741
## ENSG00000000419.12       4.441281          3.905667        5.189462
## ENSG00000000457.14       6.062337          5.292561       -1.578722
## ENSG00000000460.17       4.327246          4.310834       -1.578722
## ENSG00000000938.13       6.172464          6.210001        8.077703
## ENSG00000000971.15       5.412135          5.270663       -1.578722
##                    14-075-GFM-LPS 14-075-GFM-TNFa 14-075-GFM-unstim
## ENSG00000000003.14       3.349054       -1.299340          5.141178
## ENSG00000000419.12       4.860953        5.689344          2.888791
## ENSG00000000457.14       3.452147        4.100514          3.930611
## ENSG00000000460.17      -1.405834        2.258927          3.659309
## ENSG00000000938.13       7.197792        7.348118          6.677845
## ENSG00000000971.15      -1.405834       -1.299340          4.823696
##                    14-075-GTS-IFNy 14-075-GTS-LPS 14-075-GTS-unstim
## ENSG00000000003.14       -4.571230     -3.9401341         -4.086046
## ENSG00000000419.12        3.932596      4.8704375          4.865239
## ENSG00000000457.14        5.358738      3.0877719          3.141810
## ENSG00000000460.17       -2.394907      0.0140622          1.501919
## ENSG00000000938.13        9.882233      9.2321371          9.528319
## ENSG00000000971.15       -4.571230     -3.9401341         -4.086046
##                    14-078-GFM-DEX 14-078-GFM-IL4 14-078-GFM-LPS
## ENSG00000000003.14       4.130933       3.968970       2.384942
## ENSG00000000419.12       5.099224       4.943879       3.969905
## ENSG00000000457.14       5.388731       4.463606       6.472405
## ENSG00000000460.17       3.999689       2.826882       3.232939
## ENSG00000000938.13       7.433920       6.776325       6.040294
## ENSG00000000971.15       5.335292       5.377775       5.719510
##                    14-078-GFM-unstim 15-018-GFM-ATP 15-018-GFM-DEX
## ENSG00000000003.14          2.191408       4.014655      0.1909423
## ENSG00000000419.12          4.741606       2.429693      4.5367172
## ENSG00000000457.14          5.891848       5.048603      5.1740119
## ENSG00000000460.17          4.138941       3.529228      3.0065178
## ENSG00000000938.13          6.784933       6.251694      7.8275669
## ENSG00000000971.15          5.361333       6.761889      3.8154332
##                    15-018-GFM-IL4 15-018-GFM-LPS 15-018-GFM-unstim
## ENSG00000000003.14       3.669336       3.279064          4.915237
## ENSG00000000419.12       3.669336       4.460671          4.316599
## ENSG00000000457.14       4.969798       4.015326          5.787229
## ENSG00000000460.17       3.629582       3.371074          3.451853
## ENSG00000000938.13       7.148806       7.411360          6.007495
## ENSG00000000971.15       4.492459       5.061064          5.454103
##                    15-021-THA-LPS 15-021-THA-unstim 15-024-GFM_unstim
## ENSG00000000003.14     -2.1425731          3.006587         -4.004533
## ENSG00000000419.12      4.2852159          4.044061          5.686047
## ENSG00000000457.14      2.8144128          5.852050          2.674102
## ENSG00000000460.17      1.8764817          3.985168          2.762239
## ENSG00000000938.13      6.5288875          5.297818          8.158173
## ENSG00000000971.15      0.3752752          5.753239         -4.004533
##                    15-024-GFM-ATP 15-024-GFM-DEX 15-024-GFM-IL4 15-024-GFM-LPS
## ENSG00000000003.14     0.01427003      -3.492198      -4.244158     -5.4436394
## ENSG00000000419.12     6.03744472       5.821139       5.840208      5.6576798
## ENSG00000000457.14     3.80052421       3.834879       4.172710      3.4642728
## ENSG00000000460.17     2.71341781       2.834196       3.031036      0.7194567
## ENSG00000000938.13     8.02498885       8.858244       7.900607      7.7753778
## ENSG00000000971.15    -5.76708968      -5.814126      -4.244158     -5.4436394
##                    15-024-GFM-unstim 15-024-THA-unstim 15-032-GTS-LPS
## ENSG00000000003.14          3.047600          2.259228      0.5970991
## ENSG00000000419.12          5.157653          5.718659      4.0765685
## ENSG00000000457.14          5.165457          5.718659      3.2443250
## ENSG00000000460.17          2.392705          2.259228      2.5754825
## ENSG00000000938.13          6.500620          6.224124      6.5423178
## ENSG00000000971.15          4.849919          3.313676     -1.5183781
##                    15-032-GTS-unstim 15-041-GFM-LPS 15-041-GFM-TNFa
## ENSG00000000003.14         -2.988083      -4.986205      -0.9888868
## ENSG00000000419.12          4.782305       6.164177       6.8782683
## ENSG00000000457.14          3.924247       3.092000       3.9075400
## ENSG00000000460.17          2.623089       1.564388       1.6839458
## ENSG00000000938.13          6.563304       6.537847       5.7877436
## ENSG00000000971.15         -2.251118       1.956310       1.1874359
##                    15-055-GFM-DEX 15-055-GFM-IL4 15-055-GFM-unstim
## ENSG00000000003.14      0.1337488    -0.02788258          4.535851
## ENSG00000000419.12      6.2834959     6.96935963          4.767176
## ENSG00000000457.14      1.7187113     1.76140615          5.881173
## ENSG00000000460.17      0.1337488     1.13074169          3.972059
## ENSG00000000938.13      7.0285665     5.80050076          6.241107
## ENSG00000000971.15      0.1337488    -5.51973568          4.767176
##                    15-055-GTS-unstim 15-089-GTS-LPS 15-089-GTS-unstim
## ENSG00000000003.14          1.752084     -3.1702796          4.174271
## ENSG00000000419.12          6.188122      6.2426430          4.174271
## ENSG00000000457.14          3.320378     -2.0922771          4.174271
## ENSG00000000460.17          1.291653      0.8196667          4.174271
## ENSG00000000938.13          6.824453      4.7702787          6.496199
## ENSG00000000971.15          1.221569     -6.3402046          4.174271
##                    15-089-THA-LPS 15-089-THA-unstim 16-003-GFM-IFNy
## ENSG00000000003.14      0.2358857         2.1758998        2.457908
## ENSG00000000419.12      6.0687757         4.4978279        5.437730
## ENSG00000000457.14      1.8208482         0.5909373        3.508932
## ENSG00000000460.17      0.2358857         0.5909373        1.909038
## ENSG00000000938.13      6.2582535         5.5451336        6.168179
## ENSG00000000971.15      1.8208482         0.5909373        2.747414
##                    16-003-GFM-LPS 16-003-GFM-R848 16-003-GFM-TNFa
## ENSG00000000003.14      0.1518172       -1.103541      -0.2306238
## ENSG00000000419.12      5.4470504        5.435618       5.2612293
## ENSG00000000457.14      1.7921296        2.817007       3.1123963
## ENSG00000000460.17      0.5109635        1.362173       1.7152563
## ENSG00000000938.13      6.6617241        6.896084       6.8383987
## ENSG00000000971.15      0.6372440        1.896700       1.7362093
##                    16-003-GFM-unstim 16-003-GFS-IFNy 16-003-GFS-LPS
## ENSG00000000003.14         0.3338397        3.519180       2.258808
## ENSG00000000419.12         5.3065323        4.608818       4.954415
## ENSG00000000457.14         3.1914226        4.711132       4.114104
## ENSG00000000460.17         3.4488729        2.474092       2.864529
## ENSG00000000938.13         6.9157934        5.634658       5.496797
## ENSG00000000971.15         3.5037647        4.758281       2.689442
##                    16-003-GFS-unstim 16-003-SVZ-IFNy 16-003-SVZ-LPS
## ENSG00000000003.14          1.955351       0.3264588       1.675139
## ENSG00000000419.12          5.102733       3.1338138       2.463635
## ENSG00000000457.14          4.280496       5.5894933       4.983892
## ENSG00000000460.17          2.786851       5.0045307       2.970595
## ENSG00000000938.13          6.437479       3.7858905       3.344991
## ENSG00000000971.15          2.411729       4.8500208       3.641972
##                    16-003-SVZ-R848 16-003-SVZ-TNFa 16-003-SVZ-unstim
## ENSG00000000003.14        4.212189       0.9493057        -0.3108931
## ENSG00000000419.12        1.709689       2.3278173         4.2126689
## ENSG00000000457.14        5.334180       4.1024625         3.4581733
## ENSG00000000460.17        3.825166       2.1534464         0.4546417
## ENSG00000000938.13        3.825166       3.5815739         4.9989622
## ENSG00000000971.15        4.768583       3.9849296         2.1916072
##                    16-003-THA-IFNy 16-003-THA-LPS 16-003-THA-unstim
## ENSG00000000003.14        1.041554       2.611975        -0.6081198
## ENSG00000000419.12        4.959715       4.543588         5.6834346
## ENSG00000000457.14        3.111539       3.286034         4.1995786
## ENSG00000000460.17        2.433709       3.527248         2.3906774
## ENSG00000000938.13        6.273763       6.192478         5.9917930
## ENSG00000000971.15        1.708978       3.471797         2.3304796
##                    16-027-GFM-unstim 16-027-THA-LPS 16-027-THA-unstim
## ENSG00000000003.14         0.5535019     -0.3276495         -0.725912
## ENSG00000000419.12         5.0368934      4.9021812          5.256448
## ENSG00000000457.14         3.3440544      3.9475144          3.601137
## ENSG00000000460.17         1.2382025      2.8516939          2.679475
## ENSG00000000938.13         7.2677474      7.1663112          6.260246
## ENSG00000000971.15         2.1384644      1.2573130          3.202195
##                    16-028-GFM-LPS 16-028-GFM-unstim 16-028-GTS-LPS
## ENSG00000000003.14      1.6239283        -1.1197302       4.541186
## ENSG00000000419.12      6.1919604         4.5129855       3.162674
## ENSG00000000457.14      3.5502314         2.7840497       5.221568
## ENSG00000000460.17      0.6782905         1.4544645       3.385067
## ENSG00000000938.13      6.1119290         4.6372110       4.613335
## ENSG00000000971.15      3.1659386         0.9611898       5.595633
##                    16-028-GTS-unstim 16-028-THA-LPS 16-028-THA-unstim
## ENSG00000000003.14          3.924083      1.2998543         0.1501151
## ENSG00000000419.12          4.549234      5.7421835         6.0489684
## ENSG00000000457.14          4.861619      3.6402583         2.9682688
## ENSG00000000460.17          2.128903      0.9550365         1.4737521
## ENSG00000000938.13          4.611295      6.0388222         6.1188886
## ENSG00000000971.15          4.800329      2.5713242         0.8214924
##                    16-049-GFM-IFNy 16-049-GFM-LPS 16-049-GFM-R848
## ENSG00000000003.14      -0.4010196       1.773305       0.5571469
## ENSG00000000419.12       5.4347601       5.419907       5.3010319
## ENSG00000000457.14       3.4788542       4.609807       3.3691448
## ENSG00000000460.17       1.5221567       2.380988       1.7000211
## ENSG00000000938.13       5.2616742       5.545895       5.4504095
## ENSG00000000971.15       0.3799503       3.609807       2.1421094
##                    16-049-GFM-TNFa 16-049-GFM-unstim 16-049-GTS-IFNy
## ENSG00000000003.14       0.8861879       -1.99070082        1.254055
## ENSG00000000419.12       5.0291458        6.80436477        5.461812
## ENSG00000000457.14       3.1092671        0.03503675        4.612769
## ENSG00000000460.17       2.0864271        0.75947689        2.941116
## ENSG00000000938.13       5.4373620        3.82179741        6.004289
## ENSG00000000971.15       2.2398248       -4.31262891        2.567932
##                    16-049-GTS-LPS 16-049-GTS-unstim 16-049-SVZ-IFNy
## ENSG00000000003.14       3.185665          3.220310        1.231243
## ENSG00000000419.12       5.602403          6.040102        5.970783
## ENSG00000000457.14       4.637255          5.667608        4.204199
## ENSG00000000460.17       3.186753          3.568920        1.600211
## ENSG00000000938.13       5.245647          4.917383        6.031219
## ENSG00000000971.15       4.251380          5.209339        1.626776
##                    16-049-SVZ-LPS 16-049-SVZ-R848 16-049-SVZ-TNFa
## ENSG00000000003.14    -0.08877868       0.4434227        1.712880
## ENSG00000000419.12     6.21422475       6.2054742        6.375963
## ENSG00000000457.14     3.27000063       3.1533299        3.588734
## ENSG00000000460.17     1.50475310       1.7961691        2.263873
## ENSG00000000938.13     6.06528530       6.1684132        5.996213
## ENSG00000000971.15    -0.59897341      -2.8630754       -2.158605
##                    16-049-SVZ-unstim 16-049-THA-LPS 16-049-THA-unstim
## ENSG00000000003.14        -0.1305502      0.2124854          0.746958
## ENSG00000000419.12         5.7085250      6.1731824          6.075550
## ENSG00000000457.14         3.6621777      3.3822822          3.636215
## ENSG00000000460.17         1.6377530      2.2831495          2.772906
## ENSG00000000938.13         6.6770676      6.0001268          5.962176
## ENSG00000000971.15        -2.0448203      1.8354158          1.922808
##                    16-062-GFM-IFNy 16-062-GFM-LPS 16-062-GFM-R848
## ENSG00000000003.14       -1.682926   -0.008977225       0.1923208
## ENSG00000000419.12        5.614143    5.144527893       5.6957852
## ENSG00000000457.14        2.870189    2.631883601       2.1636205
## ENSG00000000460.17        1.784006    2.708623044       1.9629897
## ENSG00000000938.13        5.085258    4.672846815       4.6053076
## ENSG00000000971.15       -2.667619    0.280529392      -2.5301452
##                    16-062-GFM-TNFa 16-062-GFM-unstim 16-062-GTS-IFNy
## ENSG00000000003.14       -2.037585        -0.7287315       0.3786298
## ENSG00000000419.12        5.641895         5.8664141       5.0540614
## ENSG00000000457.14        2.563837         2.2816187       3.5260751
## ENSG00000000460.17        1.741108         2.2015138       2.9405929
## ENSG00000000938.13        5.068524         5.3182833       5.1782903
## ENSG00000000971.15       -5.738025        -5.3725877       0.5088597
##                    16-062-GTS-LPS 16-062-GTS-unstim 16-062-SVZ-IFNy
## ENSG00000000003.14       2.784658          1.143615       0.3430623
## ENSG00000000419.12       4.345969          5.031523       5.9028665
## ENSG00000000457.14       3.624814          3.638006       3.4564365
## ENSG00000000460.17       3.723563          3.518968       0.7253469
## ENSG00000000938.13       4.810810          5.247623       6.4091515
## ENSG00000000971.15       2.981695          1.199110      -3.6265641
##                    16-062-SVZ-LPS 16-062-SVZ-R848 16-062-SVZ-TNFa
## ENSG00000000003.14     1.41983883       0.1781003      -0.2911888
## ENSG00000000419.12     5.57255094       5.5885742       5.6900115
## ENSG00000000457.14     2.20073869       1.9127926       2.2174572
## ENSG00000000460.17     0.07668224       0.8634440       1.5887410
## ENSG00000000938.13     6.40302460       6.1456025       6.7200385
## ENSG00000000971.15    -1.88596960      -5.3764886      -5.4204718
##                    16-062-SVZ-unstim 16-062-THA-IFNy 16-062-THA-LPS
## ENSG00000000003.14        -1.1748063       1.0711917      0.4455398
## ENSG00000000419.12         5.5885570       5.4550722      5.1078016
## ENSG00000000457.14         2.6790080       3.5866920      2.4584836
## ENSG00000000460.17         1.0925933       2.4085824      2.8905863
## ENSG00000000938.13         6.5855357       6.2598057      5.5092345
## ENSG00000000971.15        -0.9337982       0.3144628     -5.8943102
##                    16-062-THA-unstim 16-074-GFM-unstim 16-080-SVZ-IFNy
## ENSG00000000003.14         0.6463348        -3.6763115        1.574394
## ENSG00000000419.12         5.5571193         7.2640021        4.293842
## ENSG00000000457.14         3.2246534        -1.3543834        5.010759
## ENSG00000000460.17         2.4705247        -0.8689566        2.472903
## ENSG00000000938.13         6.3126308         7.4523273        5.571282
## ENSG00000000971.15         0.3910777        -3.6763115        2.506664
##                    16-080-SVZ-LPS 16-080-SVZ-R848 16-080-SVZ-TNFa
## ENSG00000000003.14      -2.653230      -0.9841828       0.8843216
## ENSG00000000419.12       5.426788       5.4454331       4.8790078
## ENSG00000000457.14       2.941199       3.9132512       3.4487716
## ENSG00000000460.17       1.674744       2.1194827       0.9211869
## ENSG00000000938.13       5.623825       5.1159539       5.2685340
## ENSG00000000971.15      -2.167803       2.1201538       1.5517463
##                    16-080-SVZ-unstim 16-082-SVZ-ATP 16-082-SVZ-IFNy
## ENSG00000000003.14         -1.485002       3.244453      -3.7037962
## ENSG00000000419.12          5.620484       5.398024       4.9579819
## ENSG00000000457.14          3.727116       3.848800       1.1531895
## ENSG00000000460.17          3.372787       1.998876       0.9412137
## ENSG00000000938.13          5.589744       5.732119       2.5629903
## ENSG00000000971.15         -2.300056       3.402715       0.2030944
##                    16-082-SVZ-LPS 16-082-SVZ-R848 16-082-SVZ-TNFa
## ENSG00000000003.14       1.849790        2.401901      -1.9691167
## ENSG00000000419.12       4.790754        4.996712       6.3519094
## ENSG00000000457.14       3.568291        3.814813       0.8772763
## ENSG00000000460.17       2.283354        1.956776       0.8804823
## ENSG00000000938.13       5.885082        5.764746       2.3671667
## ENSG00000000971.15       1.676458        2.233557      -0.5906051
##                    16-082-SVZ-unstim 16-110-GFM-IFNy 16-110-GFM-LPS
## ENSG00000000003.14         0.8109076        3.045835       2.573263
## ENSG00000000419.12         4.0721729        5.853190       5.462787
## ENSG00000000457.14         3.4107854        5.261163       4.178794
## ENSG00000000460.17         2.6527624        2.901053       2.440856
## ENSG00000000938.13         6.3473263        5.367763       5.935319
## ENSG00000000971.15        -0.9546271        4.200163       3.353950
##                    16-110-GFM-R848 16-110-GFM-TNFa 16-110-GFM-unstim
## ENSG00000000003.14        3.198472        4.283495          1.343602
## ENSG00000000419.12        6.018455        5.161011          5.637906
## ENSG00000000457.14        3.585495        5.455060          3.902292
## ENSG00000000460.17        1.819960        3.115750          1.137533
## ENSG00000000938.13        5.779731        5.486587          6.225401
## ENSG00000000971.15        2.957464        4.214783          1.767319
##                    16-110-GTS-IFNy 16-110-GTS-LPS 16-110-GTS-unstim
## ENSG00000000003.14       2.1115671       1.903363         0.2914856
## ENSG00000000419.12       5.5763420       6.321443         5.6952078
## ENSG00000000457.14       3.4393718       3.033760         4.4407811
## ENSG00000000460.17       1.5412514       0.941837         2.2216973
## ENSG00000000938.13       6.4290720       4.373390         6.2116730
## ENSG00000000971.15       0.8891747       2.960696         2.6761494
##                    16-110-SVZ-IFNy 16-110-SVZ-R848 16-110-SVZ-TNFa
## ENSG00000000003.14        1.400766       2.7670860     -0.04161459
## ENSG00000000419.12        5.851619       6.4930326      6.67811646
## ENSG00000000457.14        3.780644       4.2633742      1.60771984
## ENSG00000000460.17        1.859970       0.9320774     -0.33026653
## ENSG00000000938.13        6.963340       6.9005447      6.04348897
## ENSG00000000971.15        1.942719       2.9984115     -0.86330718
##                    16-110-SVZ-unstim 16-110-THA-LPS 16-110-THA-unstim
## ENSG00000000003.14        -0.9949658       4.810145          2.859187
## ENSG00000000419.12         5.1366054       4.614225          5.691560
## ENSG00000000457.14         3.0408536       5.480467          4.033685
## ENSG00000000460.17         2.1275229       3.518805          2.983245
## ENSG00000000938.13         7.2650390       5.703230          7.759191
## ENSG00000000971.15         0.4789654       4.715508          2.670742
##                    16-112-GFM-IFNy 16-112-GFM-LPS 16-112-GFM-TNFa
## ENSG00000000003.14        2.887899       3.185754        4.098110
## ENSG00000000419.12        5.209827       5.752101        5.707525
## ENSG00000000457.14        4.824673       5.452022        5.320502
## ENSG00000000460.17        2.999740       3.337979        2.513147
## ENSG00000000938.13        5.657286       5.739556        5.580892
## ENSG00000000971.15        3.896182       4.167139        4.907366
##                    16-112-GFM-unstim 16-112-GTS-IFNy 16-112-GTS-LPS
## ENSG00000000003.14          2.650927        3.456897       3.482476
## ENSG00000000419.12          5.713539        5.290436       4.995737
## ENSG00000000457.14          4.459345        5.455787       5.116942
## ENSG00000000460.17          2.759370        3.698816       3.589616
## ENSG00000000938.13          6.101872        5.290436       5.278545
## ENSG00000000971.15          3.054282        4.237584       4.482476
##                    16-112-GTS-unstim 16-112-SVZ-LPS 16-112-SVZ-unstim
## ENSG00000000003.14          3.588757      0.5650692         0.7694273
## ENSG00000000419.12          5.728687      5.6383182         5.9458614
## ENSG00000000457.14          4.896941      3.7198348         3.5747677
## ENSG00000000460.17          2.933164      1.9119999         2.6956033
## ENSG00000000938.13          5.728687      6.0135297         6.0322869
## ENSG00000000971.15          4.653026      1.4826071         1.9430754
##                    16-112-THA-LPS 16-112-THA-unstim 16-117-GFM-DEX
## ENSG00000000003.14       3.520787          3.285104      3.6629977
## ENSG00000000419.12       4.572626          4.800942      5.0166346
## ENSG00000000457.14       5.312373          5.085790      4.3999633
## ENSG00000000460.17       4.251970          4.058360      0.4930727
## ENSG00000000938.13       5.058053          5.173313      6.0476615
## ENSG00000000971.15       3.835660          3.755995      4.1935124
##                    16-117-GFM-IFNy 16-117-GFM-LPS 16-117-GFM-R848
## ENSG00000000003.14      -1.7831625       3.449388        2.900125
## ENSG00000000419.12       5.4929619       4.496694        4.307300
## ENSG00000000457.14       2.1183319       5.985441        5.034774
## ENSG00000000460.17      -0.3739074       3.629960        3.234544
## ENSG00000000938.13       4.3746896       4.586892        4.526310
## ENSG00000000971.15       1.0241924       5.771316        5.063064
##                    16-117-GFM-TNFa 16-117-GFM-unstim 16-117-GTS-unstim
## ENSG00000000003.14        2.585896         -3.668423         0.8030335
## ENSG00000000419.12        4.475068          5.933348         5.1194020
## ENSG00000000457.14        4.827091          1.911723         3.8734228
## ENSG00000000460.17        3.169503          0.801463         2.4530910
## ENSG00000000938.13        4.744488          4.912778         5.0969472
## ENSG00000000971.15        4.470012          2.353945         3.4052783
##                    16-117-SVZ-IFNy 16-117-SVZ-LPS 16-117-SVZ-R848
## ENSG00000000003.14        1.795426     -0.7782792      -0.8216906
## ENSG00000000419.12        4.834106      4.8177143       5.3717228
## ENSG00000000457.14        4.441989      3.5890183       3.0341179
## ENSG00000000460.17        2.663494      1.7533157       0.5638660
## ENSG00000000938.13        5.598293      5.6346805       5.0698170
## ENSG00000000971.15        2.944289      1.7564639       1.0757259
##                    16-117-SVZ-unstim 16-117-THA-IFNy 16-117-THA-LPS
## ENSG00000000003.14          5.925086      -0.7788979     -2.4430984
## ENSG00000000419.12          6.662052       6.0946800      5.0939435
## ENSG00000000457.14          4.340124       2.8600322      0.8308243
## ENSG00000000460.17          5.925086       0.3263138     -2.9765306
## ENSG00000000938.13          7.147479       4.9608094      2.5445532
## ENSG00000000971.15          4.340124       2.5928428      1.1605414
##                    16-117-THA-unstim 16-118-GFM-IFNy 16-118-GFM-LPS
## ENSG00000000003.14          1.525779        1.730519       2.751409
## ENSG00000000419.12          5.990518        6.162692       5.350447
## ENSG00000000457.14          3.558166        4.984330       6.116311
## ENSG00000000460.17          2.910874        3.393662       4.151304
## ENSG00000000938.13          5.422234        5.026760       4.930733
## ENSG00000000971.15          3.504568        4.085999       5.629731
##                    16-118-GFM-R848 16-118-GFM-TNFa 16-118-GFM-unstim
## ENSG00000000003.14        2.624028        2.335609         0.2024886
## ENSG00000000419.12        5.951715        5.309614         5.9676153
## ENSG00000000457.14        3.952711        6.626286         2.8504230
## ENSG00000000460.17        2.474587        1.113217         2.4213890
## ENSG00000000938.13        5.495871        5.309614         5.7332701
## ENSG00000000971.15        2.461298        6.398619         2.2834086
##                    16-118-GTS-IFNy 16-118-GTS-LPS 16-118-GTS-unstim
## ENSG00000000003.14        3.581553       3.359506          2.885155
## ENSG00000000419.12        5.970373       5.664851          6.365700
## ENSG00000000457.14        4.632246       4.632808          5.132344
## ENSG00000000460.17        2.387090       2.351238          3.727509
## ENSG00000000938.13        5.230291       5.561140          4.970322
## ENSG00000000971.15        3.888734       4.160960          4.686929
##                    16-118-SVZ-IFNy 16-118-SVZ-LPS 16-118-SVZ-R848
## ENSG00000000003.14       -4.251233      1.2124755       0.2074547
## ENSG00000000419.12        5.651143      5.1076606       5.6534658
## ENSG00000000457.14        2.779766      3.8808147       3.8051845
## ENSG00000000460.17        3.185229      2.4201791       2.8373078
## ENSG00000000938.13        5.932403      5.8874702       5.7868405
## ENSG00000000971.15       -4.251233      0.6916433       1.6140519
##                    16-118-SVZ-TNFa 16-118-SVZ-unstim 16-137-SVZ-LPS
## ENSG00000000003.14      -1.5172468       0.002744439      1.1827932
## ENSG00000000419.12       5.6054635       5.766510093      5.0712466
## ENSG00000000457.14       3.6953932       3.973720766      3.4660095
## ENSG00000000460.17       2.8568442       3.126851962      1.8685732
## ENSG00000000938.13       6.2479262       5.855742027      5.8858728
## ENSG00000000971.15       0.1526046       2.204378300      0.8779386
##                    16-137-SVZ-R848 16-137-SVZ-TNFa 16-137-SVZ-unstim
## ENSG00000000003.14       0.5758902      -2.3447838         1.3862749
## ENSG00000000419.12       6.0759404       5.9816457         4.6941734
## ENSG00000000457.14       1.5625111       0.9104148         3.8623639
## ENSG00000000460.17       0.7733362      -0.9018845         2.9162167
## ENSG00000000938.13       5.3114679       3.3611941         6.7774838
## ENSG00000000971.15      -0.8026214      -1.3936934         0.5195414
##                    17-003-GTS-IFNy 17-003-GTS-LPS 17-003-GTS-unstim
## ENSG00000000003.14        1.256304       2.814774          3.721332
## ENSG00000000419.12        6.757288       5.622129          5.763977
## ENSG00000000457.14        3.215847       5.136702          4.848834
## ENSG00000000460.17        1.146850       2.814774          2.585905
## ENSG00000000938.13        5.312251       5.984699          5.818943
## ENSG00000000971.15        2.383061       2.814774          4.435028
##                    17-003-SVZ-IFNy 17-003-SVZ-LPS 17-003-SVZ-R848
## ENSG00000000003.14      -1.2622910     -0.4984192      -0.5903746
## ENSG00000000419.12       6.3801218      6.0023121       5.2922685
## ENSG00000000457.14       1.3472749      3.1537231       3.3514829
## ENSG00000000460.17      -0.1668391      0.8960340       1.6212607
## ENSG00000000938.13       3.6193736      5.4573276       5.5013252
## ENSG00000000971.15      -2.7362222     -0.1573822       2.2971507
##                    17-003-SVZ-TNFa 17-003-SVZ-unstim 17-003-THA-IFNy
## ENSG00000000003.14     -0.33453643          2.257965        2.639296
## ENSG00000000419.12      6.31874107          5.452818        4.938415
## ENSG00000000457.14      1.24644072          3.778917        5.504633
## ENSG00000000460.17      0.02626374          1.965438        3.496067
## ENSG00000000938.13      3.04110225          5.024331        5.670775
## ENSG00000000971.15     -5.19251743          2.011804        4.409814
##                    17-003-THA-LPS 17-003-THA-unstim 17-005-GFM-IFNy
## ENSG00000000003.14       2.419852          1.679505      -2.0869190
## ENSG00000000419.12       5.009713          5.281541       5.6396398
## ENSG00000000457.14       3.951024          3.765424       5.0468090
## ENSG00000000460.17       2.210454          2.540145       2.2613135
## ENSG00000000938.13       4.929264          6.191617       7.2054027
## ENSG00000000971.15       3.691205          1.435086      -0.5019565
##                    17-005-GFM-R848 17-005-GFM-TNFa 17-005-GTS-IFNy
## ENSG00000000003.14      -0.6260461     -0.74547664      -0.5400297
## ENSG00000000419.12       5.7713140      5.50579690       5.2106332
## ENSG00000000457.14       2.8852136      4.22618862       4.2414404
## ENSG00000000460.17       1.9326537      2.78603325       1.8187811
## ENSG00000000938.13       7.0739856      7.54670963       7.6312129
## ENSG00000000971.15      -0.8066183      0.02504151      -0.5400297
##                    17-005-SVZ-IFNy 17-005-SVZ-LPS 17-005-SVZ-R848
## ENSG00000000003.14      -2.3363535      -2.723393      -0.6709713
## ENSG00000000419.12       5.1807790       5.714474       5.0354872
## ENSG00000000457.14       5.0856501       3.199492       4.0950246
## ENSG00000000460.17       2.7951013       0.861302       2.1470967
## ENSG00000000938.13       7.0380932       6.616704       7.6262440
## ENSG00000000971.15       0.7120095      -2.433887      -1.1070704
##                    17-005-SVZ-TNFa 17-005-SVZ-unstim 17-013-GFM-LPS
## ENSG00000000003.14      -2.7740300         -2.055936     -1.2535382
## ENSG00000000419.12       4.8827524          5.164523      5.4607073
## ENSG00000000457.14       3.6492792          3.973900      1.7209911
## ENSG00000000460.17       2.6243204          3.042629     -0.2468213
## ENSG00000000938.13       7.4750835          7.118157      5.7245049
## ENSG00000000971.15      -0.7036407         -5.962827      1.7584345
##                    17-013-GFM-unstim 17-013-SVZ-IFNy 17-013-SVZ-LPS
## ENSG00000000003.14        -0.3644495       -1.383550      -1.228698
## ENSG00000000419.12         5.6430450        5.015358       4.316164
## ENSG00000000457.14         3.2617559        3.995121       3.618138
## ENSG00000000460.17         1.7461364        1.788100       2.338693
## ENSG00000000938.13         6.4608273        5.846008       6.274500
## ENSG00000000971.15         2.7351823       -2.762062      -3.891663
##                    17-013-SVZ-R848 17-013-SVZ-TNFa 17-013-SVZ-unstim
## ENSG00000000003.14      -0.8898796       -1.440371         -1.964388
## ENSG00000000419.12       5.4485448        5.364405          4.841976
## ENSG00000000457.14       2.9443461        2.978449          2.851739
## ENSG00000000460.17       1.9694539        2.261252          1.841222
## ENSG00000000938.13       6.1954600        5.921280          5.733382
## ENSG00000000971.15      -1.2858083       -2.177337         -1.964388
##                    17-017-GFM-IFNy 17-017-GFM-R848 17-017-GFM-TNFa
## ENSG00000000003.14        3.056531       0.4901638        2.523590
## ENSG00000000419.12        5.013092       5.6335106        5.820809
## ENSG00000000457.14        3.994067       2.8838154        4.287202
## ENSG00000000460.17        1.361339       1.7545716        2.189361
## ENSG00000000938.13        5.266645       5.8795340        5.937777
## ENSG00000000971.15        2.031869      -0.1968391        1.187987
##                    17-017-GFM-unstim 17-017-GTS-LPS 17-017-GTS-unstim
## ENSG00000000003.14          1.012468      2.6225925         0.3753689
## ENSG00000000419.12          5.155426      0.3006644         4.4963843
## ENSG00000000457.14          2.597430      5.0316062         4.5925996
## ENSG00000000460.17          1.749433      0.5901710        -1.9465592
## ENSG00000000938.13          5.836896      6.5464812         2.3013683
## ENSG00000000971.15          3.675433      3.1968286         3.7258661
##                    17-017-SVZ-IFNy 17-017-SVZ-LPS 17-017-SVZ-R848
## ENSG00000000003.14       0.2021086      1.3966012      -0.2563640
## ENSG00000000419.12       5.9190995      5.5056616       5.7660038
## ENSG00000000457.14       3.9534295      3.1446219       2.9610300
## ENSG00000000460.17       2.1025729      0.1986618       2.6175528
## ENSG00000000938.13       6.3106331      6.3194333       6.4048515
## ENSG00000000971.15       1.8498069      1.5374637      -0.5974009
##                    17-017-SVZ-TNFa 17-017-SVZ-unstim 17-017-THA-LPS
## ENSG00000000003.14      -1.7135912        -0.4434097       2.023574
## ENSG00000000419.12       5.6477260         5.4333528       3.849545
## ENSG00000000457.14       3.1822654         3.0681595       1.734068
## ENSG00000000460.17       2.2285882         2.2062517       1.734068
## ENSG00000000938.13       6.6964058         6.4678025       3.518339
## ENSG00000000971.15       0.3370349        -2.2799110       4.867923
##                    17-021-SVZ-unstim 17-029-GFM-LPS 17-029-GFM-unstim
## ENSG00000000003.14         -2.335187      0.6543372          2.611769
## ENSG00000000419.12          6.056740      6.2089261          5.916823
## ENSG00000000457.14          2.411810      2.9762653          4.259967
## ENSG00000000460.17          1.361414      3.4616921          3.379670
## ENSG00000000938.13          6.226709      5.7836202          5.330162
## ENSG00000000971.15         -4.209656      0.6543372          3.862166
##                    17-029-GTS-LPS 17-029-GTS-unstim 17-029-SVZ-IFNy
## ENSG00000000003.14       2.142218          0.267891        2.347599
## ENSG00000000419.12       5.752460          4.174782        5.884573
## ENSG00000000457.14       3.641011          5.694156        3.754519
## ENSG00000000460.17       3.069138          0.267891        2.900286
## ENSG00000000938.13       5.114633          6.534678        5.495991
## ENSG00000000971.15       2.589677          0.267891        1.713727
##                    17-029-SVZ-LPS 17-029-SVZ-R848 17-029-SVZ-TNFa
## ENSG00000000003.14       2.606886      -0.3249802        1.714507
## ENSG00000000419.12       6.293560       6.5952851        5.937930
## ENSG00000000457.14       3.766723       3.2109264        4.334437
## ENSG00000000460.17       2.116535       1.9938896        1.674722
## ENSG00000000938.13       4.840684       5.4061392        6.016095
## ENSG00000000971.15       2.603677       0.1677025        2.903541
##                    17-029-SVZ-unstim 17-032-GTS-IFNy 17-032-GTS-LPS
## ENSG00000000003.14         0.8599100    -0.006238236      0.4661619
## ENSG00000000419.12         5.7601849     6.310444748      5.3762550
## ENSG00000000457.14         3.6485547     2.847950504      3.9855361
## ENSG00000000460.17         2.8570784     2.015012219      2.1442338
## ENSG00000000938.13         5.6127005     5.898323553      5.5677000
## ENSG00000000971.15         0.4728868    -1.053543951      2.1138602
##                    17-032-GTS-unstim 17-032-SVZ-IFNy 17-032-SVZ-LPS
## ENSG00000000003.14         -2.767166       -2.496521      -1.430143
## ENSG00000000419.12          5.999031        5.379996       5.526378
## ENSG00000000457.14          3.250845        3.522736       3.686222
## ENSG00000000460.17          3.139628        3.734988       2.168222
## ENSG00000000938.13          5.646462        6.339530       5.311324
## ENSG00000000971.15         -1.919169       -2.496521      -2.167109
##                    17-032-SVZ-R848 17-032-SVZ-TNFa 17-032-SVZ-unstim
## ENSG00000000003.14       -2.229415      -1.6843854        -0.4361429
## ENSG00000000419.12        6.200108       6.1584139         6.1637700
## ENSG00000000457.14        2.608417       3.9016930         3.5275074
## ENSG00000000460.17        1.998292       3.0761397         2.9288297
## ENSG00000000938.13        4.728655       4.9656405         4.3687564
## ENSG00000000971.15       -2.591985      -0.2438128         0.7862495
##                    17-032-THA-IFNy 17-032-THA-LPS 17-032-THA-unstim
## ENSG00000000003.14        1.935326     -0.1994465          1.181042
## ENSG00000000419.12        5.687666      5.4907353          5.498154
## ENSG00000000457.14        4.056499      3.6233373          3.920315
## ENSG00000000460.17        2.738356      1.5331084          2.660963
## ENSG00000000938.13        5.677435      5.6728639          6.122775
## ENSG00000000971.15        1.975968      1.8924760          2.318546
##                    17-043-GFM-IFNy 17-043-GFM-LPS 17-043-GFM-R848
## ENSG00000000003.14        2.994560       3.842475        3.234063
## ENSG00000000419.12        4.915950       3.190398        4.915241
## ENSG00000000457.14        5.077386       5.518633        5.001937
## ENSG00000000460.17        3.279289       3.158445        3.033722
## ENSG00000000938.13        6.805034       6.405411        5.827293
## ENSG00000000971.15        3.927446       4.155633        4.157441
##                    17-043-GFM-TNFa 17-043-GFM-unstim 17-043-GTS-unstim
## ENSG00000000003.14        3.061100          3.467055          1.493286
## ENSG00000000419.12        5.168903          4.083727          4.616668
## ENSG00000000457.14        4.634073          5.012365          4.700286
## ENSG00000000460.17        3.190440          3.004655          3.231899
## ENSG00000000938.13        7.360466          6.615447          5.825482
## ENSG00000000971.15        3.694972          3.467055          3.815214
##                    17-043-SVZ-LPS 17-043-SVZ-unstim 17-043-THA-LPS
## ENSG00000000003.14      -5.068749        -1.6312234       2.321430
## ENSG00000000419.12       5.316035         5.9639493       5.092489
## ENSG00000000457.14       2.859029         3.6904424       5.020711
## ENSG00000000460.17       1.745033         2.6103395       2.911402
## ENSG00000000938.13       6.675665         6.3976873       5.792221
## ENSG00000000971.15      -1.898824        -0.3357675       3.728605
##                    17-043-THA-unstim 17-074-GFM-LPS 17-074-GFM-unstim
## ENSG00000000003.14        -0.5482713       1.148192         0.3254171
## ENSG00000000419.12         5.8701436       5.613797         5.6688249
## ENSG00000000457.14         3.5790319       3.785894         3.5317130
## ENSG00000000460.17         2.0344453       2.761546         1.4284111
## ENSG00000000938.13         5.8429007       6.516328         6.6226901
## ENSG00000000971.15         0.8302404       2.870823         2.1998862
##                    17-074-THA-LPS 17-074-THA-unstim 17-078-GFM-IFNy
## ENSG00000000003.14       1.120093         0.3731417       0.3169119
## ENSG00000000419.12       5.697824         5.9297095       6.8560707
## ENSG00000000457.14       4.101653         3.7992765       3.3304734
## ENSG00000000460.17       3.211488         2.3588771       1.2613539
## ENSG00000000938.13       6.524724         6.5540133       6.6125533
## ENSG00000000971.15       2.410282         2.4742278       0.3169119
##                    17-078-GFM-LPS 17-078-GFM-R848 17-078-GFM-TNFa
## ENSG00000000003.14       2.871669        3.148209        2.463610
## ENSG00000000419.12       3.935799        4.638534        5.270965
## ENSG00000000457.14       5.129777        5.495739        5.328680
## ENSG00000000460.17       3.154243        3.715661        2.463610
## ENSG00000000938.13       5.920032        5.935800        6.226110
## ENSG00000000971.15       4.697639        4.182156        4.865708
##                    17-078-GFM-unstim 17-078-SVZ-LPS 17-078-SVZ-unstim
## ENSG00000000003.14          3.023624       1.683373          1.595376
## ENSG00000000419.12          5.708122       5.801678          6.050001
## ENSG00000000457.14          5.770858       3.976635          4.255857
## ENSG00000000460.17          3.386194       1.707316          1.807072
## ENSG00000000938.13          4.971157       6.146814          6.112805
## ENSG00000000971.15          5.642534       2.576458          2.577674
##                    17-090-SVZ-IFNy 17-094-GFM-IFNy 17-094-GFM-LPS
## ENSG00000000003.14      -0.4785171       0.4423558     -1.7137628
## ENSG00000000419.12       5.1740941       5.4133768      5.5487592
## ENSG00000000457.14       4.5999888       4.6143681      2.8078590
## ENSG00000000460.17       2.5435805       2.5389448      1.2419558
## ENSG00000000938.13       7.2300420       7.8017727      7.1857314
## ENSG00000000971.15      -1.0951884       1.1258822     -0.6496325
##                    17-094-GFM-R848 17-094-GFM-TNFa 17-094-GFM-unstim
## ENSG00000000003.14      -0.9373333       0.5267582        -2.1137413
## ENSG00000000419.12       5.3430157       6.0813470         5.4089492
## ENSG00000000457.14       3.7304557       3.1334296         3.5490338
## ENSG00000000460.17       1.9323587       1.1326654         2.3166926
## ENSG00000000938.13       7.6810522       6.6094223         7.5841915
## ENSG00000000971.15       1.2986722       1.6810863        -0.4256854
##                    17-094-GTS-LPS 17-094-GTS-unstim 17-094-SVZ-IFNy
## ENSG00000000003.14       1.658086        -1.2814068     -1.28474376
## ENSG00000000419.12       5.460007         6.1420594      5.73677013
## ENSG00000000457.14       4.867950         3.2404815      4.86127849
## ENSG00000000460.17       2.588077         1.4391149      2.57995669
## ENSG00000000938.13       7.126121         7.0249081      7.85264153
## ENSG00000000971.15       3.024869         0.4066492     -0.06489018
##                    17-094-SVZ-LPS 17-094-SVZ-R848 17-094-SVZ-TNFa
## ENSG00000000003.14      0.4019425       0.3123056       -4.066829
## ENSG00000000419.12      5.6588812       5.5328567        5.612064
## ENSG00000000457.14      3.2461177       4.2141494        4.024060
## ENSG00000000460.17      1.8475683       2.5652863        2.606633
## ENSG00000000938.13      6.7802889       7.5633934        7.795421
## ENSG00000000971.15     -1.1830200       1.0713599       -1.403864
##                    17-094-SVZ-unstim 17-094-THA-IFNy 17-094-THA-LPS
## ENSG00000000003.14         -1.451444       0.2593416      0.2603843
## ENSG00000000419.12          5.476065       4.9499559      5.5422591
## ENSG00000000457.14          3.746979       4.3912410      3.5694773
## ENSG00000000460.17          2.411954       2.5287269      1.7715872
## ENSG00000000938.13          7.772777       7.6481187      6.6874476
## ENSG00000000971.15         -2.103520       1.8997993      0.9124610
##                    17-094-THA-unstim 17-097-GFM-IFNy 17-097-GFM-LPS
## ENSG00000000003.14          1.471347        1.314877      0.9627211
## ENSG00000000419.12          5.101825        5.198498      5.7317876
## ENSG00000000457.14          3.788533        4.515005      3.8930169
## ENSG00000000460.17          1.983996        2.263179      1.1982440
## ENSG00000000938.13          7.620052        6.962192      5.4001264
## ENSG00000000971.15          1.241661        2.285731      3.2846492
##                    17-097-GFM-R848 17-097-GFM-TNFa 17-097-GFM-unstim
## ENSG00000000003.14        2.576431        1.902217          2.605220
## ENSG00000000419.12        5.495085        5.474333          5.284510
## ENSG00000000457.14        3.563209        4.043483          4.059965
## ENSG00000000460.17        2.030422        2.406378          2.330283
## ENSG00000000938.13        6.624655        6.730252          6.409787
## ENSG00000000971.15        2.674278        1.633030          2.039623
##                    17-097-GTS-LPS 17-097-GTS-unstim 17-097-SVZ-IFNy
## ENSG00000000003.14       2.836289          2.594802       0.1051406
## ENSG00000000419.12       5.354138          6.247147       5.5124934
## ENSG00000000457.14       5.048906          3.740880       5.0156431
## ENSG00000000460.17       3.116706          2.496954       3.1625562
## ENSG00000000938.13       6.118325          6.390282       6.2153368
## ENSG00000000971.15       3.149447          2.155917       1.0158733
##                    17-097-SVZ-LPS 17-097-SVZ-R848 17-097-SVZ-TNFa
## ENSG00000000003.14     -1.1856684       0.6244666       0.2658351
## ENSG00000000419.12      5.7936306       5.4273984       5.4431623
## ENSG00000000457.14      2.4121081       4.0318582       4.3044534
## ENSG00000000460.17      1.2842175       2.7301447       3.3329129
## ENSG00000000938.13      5.2277106       6.4207380       6.3572215
## ENSG00000000971.15     -0.3124342       0.7046370       0.5553417
##                    17-097-SVZ-unstim 17-099-GFM-IFNy 17-099-GFM-LPS
## ENSG00000000003.14          2.298279        2.472324      0.9049124
## ENSG00000000419.12          5.193713        5.369877      4.7728089
## ENSG00000000457.14          4.326009        4.350512      3.6993491
## ENSG00000000460.17          3.079834        3.042944      1.7387336
## ENSG00000000938.13          5.885278        7.152939      6.9847172
## ENSG00000000971.15          2.143556        2.755386      1.5464585
##                    17-099-GFM-R848 17-099-GFM-TNFa 17-099-GFM-unstim
## ENSG00000000003.14        1.115393        1.692618        -0.8605731
## ENSG00000000419.12        5.625918        5.473368         5.3791959
## ENSG00000000457.14        3.053646        3.494595         3.2070329
## ENSG00000000460.17        2.521573        2.075253         1.5268945
## ENSG00000000938.13        6.876715        7.254328         7.2387121
## ENSG00000000971.15        1.614964        1.758207        -1.0049630
##                    17-099-GTS-IFNy 17-099-GTS-LPS 17-099-GTS-unstim
## ENSG00000000003.14        2.665966       3.372398         1.1656157
## ENSG00000000419.12        5.439133       4.714317         5.6230588
## ENSG00000000457.14        4.628470       4.868569         3.2833108
## ENSG00000000460.17        2.785295       2.789112         2.5933844
## ENSG00000000938.13        7.419101       6.496880         7.5615717
## ENSG00000000971.15        2.516589       3.075416         0.7650778
##                    17-099-SVZ-LPS 17-099-SVZ-R848 17-099-SVZ-TNFa
## ENSG00000000003.14     -0.4650181      -3.2005322     -1.40262441
## ENSG00000000419.12      5.2524952       5.2792481      5.89366613
## ENSG00000000457.14      3.1409729       3.4022533      3.24584103
## ENSG00000000460.17      1.3185883       2.2634825      1.84004738
## ENSG00000000938.13      6.6410151       7.0533153      6.53401353
## ENSG00000000971.15     -4.8573355      -0.6980319      0.09214028
##                    17-099-SVZ-unstim 17-099-THA-IFNy 17-099-THA-LPS
## ENSG00000000003.14         -1.053779        4.094147       3.390409
## ENSG00000000419.12          5.473397        5.231650       5.037100
## ENSG00000000457.14          3.934521        4.842810       4.681162
## ENSG00000000460.17          3.264594        2.338962       2.659736
## ENSG00000000938.13          7.018508        6.594649       6.858415
## ENSG00000000971.15         -1.946864        2.439643       2.745074
##                    17-099-THA-unstim 17-102-GFM-LPS 17-102-GFM-unstim
## ENSG00000000003.14          1.126856       2.149969        -0.1889373
## ENSG00000000419.12          6.144390       6.056860         5.8947767
## ENSG00000000457.14          4.408586       3.683401         4.3859478
## ENSG00000000460.17          2.517858       1.526532         2.5417346
## ENSG00000000938.13          7.244442       6.470631         7.0980960
## ENSG00000000971.15          1.812747       1.808932         0.8528829
##                    17-102-GTS-LPS 17-102-GTS-unstim 17-102-SVZ-IFNy
## ENSG00000000003.14       1.782590          1.705988        1.223572
## ENSG00000000419.12       5.689480          5.520864        5.022067
## ENSG00000000457.14       4.223633          4.495539        4.947723
## ENSG00000000460.17       2.488377          3.187892        2.671113
## ENSG00000000938.13       5.475355          6.644205        6.371576
## ENSG00000000971.15       2.350873          1.774701        1.520553
##                    17-102-SVZ-LPS 17-102-SVZ-R848 17-102-SVZ-TNFa
## ENSG00000000003.14      0.6082632      -1.0775990      -1.4408252
## ENSG00000000419.12      5.0955290       6.5366778       6.6881143
## ENSG00000000457.14      3.9746753       3.4572097       3.3621263
## ENSG00000000460.17      2.2209864       1.2601961       1.7532619
## ENSG00000000938.13      6.3315097       6.2320780       6.1674913
## ENSG00000000971.15      0.1228363      -0.6414998      -0.7038596
##                    17-102-SVZ-unstim 17-102-THA-LPS 17-102-THA-unstim
## ENSG00000000003.14        -0.5740222      0.2653867          2.483660
## ENSG00000000419.12         5.7189760      5.3345488          5.554780
## ENSG00000000457.14         4.3803931      3.6912041          4.041772
## ENSG00000000460.17         2.3710567      1.1330950          2.236500
## ENSG00000000938.13         6.5240099      6.4054252          6.446741
## ENSG00000000971.15        -0.9610453      2.2129193          3.232852
##                    17-124-GFM-LPS 17-124-GFM-unstim 17-124-SVZ-IFNy
## ENSG00000000003.14       3.127698          2.570035      -0.6243938
## ENSG00000000419.12       5.544933          5.676535       5.1469385
## ENSG00000000457.14       4.309304          4.533510       5.1271821
## ENSG00000000460.17       2.293708          2.664598       2.4145774
## ENSG00000000938.13       6.446103          6.537680       7.3150455
## ENSG00000000971.15       3.747426          4.091573       0.0276829
##                    17-124-SVZ-LPS 17-124-SVZ-R848 17-124-SVZ-TNFa
## ENSG00000000003.14      0.2406358      -0.5683289       0.1530736
## ENSG00000000419.12      5.2420013       5.3440999       5.5770226
## ENSG00000000457.14      3.6892965       4.3885141       4.1392648
## ENSG00000000460.17      2.1700825       2.0578406       2.4692193
## ENSG00000000938.13      6.3041126       6.7515169       7.0793184
## ENSG00000000971.15     -0.1599022       1.2230845       0.5045459
##                    17-124-SVZ-unstim 17-124-THA-IFNy 17-124-THA-LPS
## ENSG00000000003.14         0.2252018        1.823803      0.7717708
## ENSG00000000419.12         5.3106427        4.631158      5.4198953
## ENSG00000000457.14         3.9853721        4.806741      3.5614614
## ENSG00000000460.17         2.1082640        1.917400      0.4296648
## ENSG00000000938.13         6.8434125        6.832308      6.3973444
## ENSG00000000971.15         1.3874733        2.545087      1.4431481
##                    17-124-THA-unstim 17-136-GFM-IFNy 17-136-GFM-LPS
## ENSG00000000003.14          1.274962        1.841499       2.111322
## ENSG00000000419.12          5.688496        5.681373       5.274336
## ENSG00000000457.14          3.885347        4.298809       2.769675
## ENSG00000000460.17          1.835786        1.868262       1.915927
## ENSG00000000938.13          6.844480        6.239652       5.595918
## ENSG00000000971.15          1.274962        2.083924       1.076784
##                    17-136-GFM-R848 17-136-GFM-TNFa 17-136-GFM-unstim
## ENSG00000000003.14        2.925470        2.922017          2.660051
## ENSG00000000419.12        5.355236        5.846990          5.295137
## ENSG00000000457.14        3.498902        4.449980          4.137336
## ENSG00000000460.17        1.053152        2.680654          3.262972
## ENSG00000000938.13        5.650543        4.872435          5.729399
## ENSG00000000971.15        2.068834        3.689843          3.343578
##                    17-136-SVZ-LPS 17-136-SVZ-unstim 17-148-GTS-LPS
## ENSG00000000003.14      1.4530232         0.5570602       2.081373
## ENSG00000000419.12      5.3371039         6.7263778       4.307882
## ENSG00000000457.14      3.0258654         2.2533238       4.323335
## ENSG00000000460.17      1.8739890         2.1428968       2.596985
## ENSG00000000938.13      5.7039254         4.3737529       5.592335
## ENSG00000000971.15      0.3041598         0.9701290       3.399140
##                    17-148-GTS-unstim 17-148-SVZ-LPS 17-148-SVZ-unstim
## ENSG00000000003.14          3.227974     0.07106024        -0.1934722
## ENSG00000000419.12          1.112497     5.17848382         5.3368918
## ENSG00000000457.14          6.434665     3.82740938         3.7218409
## ENSG00000000460.17          4.774702     2.47504547         2.1530840
## ENSG00000000938.13          4.656817     6.09809320         6.1633147
## ENSG00000000971.15          5.308894     1.70577578        -0.1723015
##                    18-010-GFM-LPS 18-010-GFM-unstim 18-010-GTS-IFNy
## ENSG00000000003.14     -0.9406479          2.534302      -0.1143839
## ENSG00000000419.12      5.1867603          5.193558       6.3241307
## ENSG00000000457.14      4.0435271          3.933506       4.0510457
## ENSG00000000460.17      2.6625603          2.757498       1.3306364
## ENSG00000000938.13      6.0335059          5.852707       5.6458370
## ENSG00000000971.15      1.0415367          3.353072       1.9094628
##                    18-010-GTS-LPS 18-010-GTS-unstim 18-010-SVZ-IFNy
## ENSG00000000003.14       1.959329         0.6725134      -1.1296825
## ENSG00000000419.12       5.835522         5.6342368       5.4058216
## ENSG00000000457.14       4.794615         3.2666746       4.7077859
## ENSG00000000460.17       3.047685         1.6309799       1.7592183
## ENSG00000000938.13       4.766684         5.9173593       7.0977211
## ENSG00000000971.15       3.061898         1.8234243      -0.4622578
##                    18-010-SVZ-LPS 18-010-SVZ-R848 18-010-SVZ-TNFa
## ENSG00000000003.14    -1.00958346      -0.6660682      -0.4805160
## ENSG00000000419.12     5.17719744       5.1614835       5.0996930
## ENSG00000000457.14     4.13834938       4.2214058       4.2183458
## ENSG00000000460.17     2.77443723       2.6681086       3.0823851
## ENSG00000000938.13     6.90238461       6.9263889       7.0235189
## ENSG00000000971.15    -0.06616699      -0.6660682       0.2257528
##                    18-010-SVZ-unstim 18-010-THA-IFNy 18-010-THA-LPS
## ENSG00000000003.14         -2.487099        2.118702     -0.1980718
## ENSG00000000419.12          4.965943        5.382214      5.4244682
## ENSG00000000457.14          3.476118        4.932455      4.0261744
## ENSG00000000460.17          2.276667        2.617804      2.2104590
## ENSG00000000938.13          6.438703        6.846191      7.1411844
## ENSG00000000971.15         -1.264707        2.530301      0.9315410
##                    18-010-THA-unstim 18-018-GFM-ATP 18-018-GFM-DEX
## ENSG00000000003.14         0.7590940      -3.627939      -5.269055
## ENSG00000000419.12         5.5912607       5.931629       5.471569
## ENSG00000000457.14         2.9025807       3.260999       3.275755
## ENSG00000000460.17         0.9999752       2.490670       3.248772
## ENSG00000000938.13         6.2044045       7.707340       8.308964
## ENSG00000000971.15         1.7383354      -3.627939      -1.021127
##                    18-018-GFM-IFNy 18-018-GFM-TNFa 18-018-GFM-unstim
## ENSG00000000003.14        1.877146        1.110743         -2.834601
## ENSG00000000419.12        5.499078        6.102948          5.448024
## ENSG00000000457.14        4.293011        3.170193          3.542801
## ENSG00000000460.17        2.568168        1.386983          2.974402
## ENSG00000000938.13        7.183021        6.035760          7.423965
## ENSG00000000971.15        2.485568        3.147579         -5.156529
##                    18-018-SVZ-IFNy 18-018-SVZ-LPS 18-018-SVZ-TNFa
## ENSG00000000003.14       0.8181985       2.805453      -1.7693096
## ENSG00000000419.12       5.7856307       4.937903       6.0415092
## ENSG00000000457.14       4.1761124       4.310301       3.4250685
## ENSG00000000460.17       2.2611989       2.957012       2.0701849
## ENSG00000000938.13       6.8278272       6.330622       5.3303417
## ENSG00000000971.15       1.1151803       3.247971       0.5075306
##                    18-018-SVZ-unstim 18-018-THA-unstim 18-0198-GFM-LPS
## ENSG00000000003.14        -0.1155898        -4.0917429        4.935600
## ENSG00000000419.12         4.9404156         5.3380125        5.148844
## ENSG00000000457.14         4.2266805         3.7139794        4.436989
## ENSG00000000460.17         3.1246227         3.0807179        2.117224
## ENSG00000000938.13         6.8609266         7.3510278        6.339423
## ENSG00000000971.15         1.1068026        -0.9218179        2.759277
##                    18-021-GFM-DEX 18-021-GFM-LPS 18-021-GFM-unstim
## ENSG00000000003.14      0.2798556     3.39152826         -5.134946
## ENSG00000000419.12      4.8034175     4.97649076          4.916263
## ENSG00000000457.14      5.4625479     4.18002415          2.726265
## ENSG00000000460.17      2.1595613     1.51705914          2.603011
## ENSG00000000938.13      6.9663561     7.24497959          8.263130
## ENSG00000000971.15      0.2798556    -0.06790336         -1.675514
##                    18-021-GTS-LPS 18-021-GTS-unstim 18-021-THA-LPS
## ENSG00000000003.14      -3.696085          5.631352     -0.3145233
## ENSG00000000419.12       4.846947          5.017243      4.2090386
## ENSG00000000457.14       3.055772          5.074958      3.3859164
## ENSG00000000460.17       1.560423          3.650461      4.2090386
## ENSG00000000938.13       7.837731          6.222712      6.6967039
## ENSG00000000971.15      -0.888730          3.309424      5.6162140
##                    18-021-THA-unstim 18-039-SVZ-IFNy 18-039-SVZ-R848
## ENSG00000000003.14         -5.547177        2.150925      -0.8393922
## ENSG00000000419.12          5.351424        5.869250       5.8712645
## ENSG00000000457.14          3.723305        4.723225       3.2916819
## ENSG00000000460.17          3.503814        3.225764       1.7765972
## ENSG00000000938.13          7.130322        6.962452       7.1745069
## ENSG00000000971.15         -5.547177        3.078976      -0.9706367
##                    18-039-SVZ-TNFa 18-064-GFM-ATP 18-064-GFM-DEX
## ENSG00000000003.14       1.3720863      0.3705517    -4.56513183
## ENSG00000000419.12       5.9235395      5.4998347     4.54077667
## ENSG00000000457.14       3.4911375      6.2079904     2.53290025
## ENSG00000000460.17       2.5536108      5.5729694     0.07872436
## ENSG00000000938.13       6.8924444      6.5603762     8.37903115
## ENSG00000000971.15       0.4012326      0.3705517    -4.56513183
##                    18-064-GFM-IFNy 18-064-GFM-IL4 18-064-GFM-LPS
## ENSG00000000003.14        4.253719      -3.422733      -4.120813
## ENSG00000000419.12        6.575647       5.398510       4.641846
## ENSG00000000457.14        4.253719       3.620641       3.378023
## ENSG00000000460.17        4.253719       2.814270       2.613535
## ENSG00000000938.13        7.061074       7.602176       6.266127
## ENSG00000000971.15        4.253719      -3.422733      -3.383847
##                    18-064-GFM-TNFa 18-064-GFM-unstim 18-064-GTS-LPS
## ENSG00000000003.14      -3.9572043         1.9803340     -5.2513680
## ENSG00000000419.12       5.9153851         5.5246545      4.0951457
## ENSG00000000457.14       0.9591662         3.5652965      2.7802919
## ENSG00000000460.17       0.2501680         0.3953715      0.9643106
## ENSG00000000938.13       6.4691770         7.7262884      6.4320653
## ENSG00000000971.15      -1.9176759         1.9803340     -5.2513680
##                    18-064-GTS-unstim 18-064-THA-LPS 18-064-THA-unstim
## ENSG00000000003.14         -2.182600     -5.3444860         -5.546459
## ENSG00000000419.12          3.883489      4.2830478          4.589250
## ENSG00000000457.14          3.073332      3.2314313          3.569885
## ENSG00000000460.17          3.378639      1.8492857          2.425085
## ENSG00000000938.13          7.194610      6.9435149          7.415895
## ENSG00000000971.15         -4.989955     -0.5319878         -1.846019
##                    18-074-GTS-LPS 18-074-GTS-unstim 18-074-SVZ-IFNy
## ENSG00000000003.14       1.736793          3.102584        1.570010
## ENSG00000000419.12       5.592930          6.093687        5.903526
## ENSG00000000457.14       4.151430          4.537469        4.116138
## ENSG00000000460.17       2.937032          3.440131        2.395598
## ENSG00000000938.13       5.867602          6.185867        6.691293
## ENSG00000000971.15       2.912643          3.304423        1.777701
##                    18-074-SVZ-LPS 18-074-SVZ-R848 18-074-SVZ-TNFa
## ENSG00000000003.14    -0.06027287       1.7234062        2.591347
## ENSG00000000419.12     5.51288033       5.9022093        5.608261
## ENSG00000000457.14     3.96259666       3.4917670        3.816226
## ENSG00000000460.17     1.90994058       2.6358431        3.151047
## ENSG00000000938.13     6.96064670       6.8708938        6.867647
## ENSG00000000971.15    -0.49637199       0.4794806        2.397613
##                    18-074-SVZ-unstim 18-079-GFM-LPS 18-079-GFM-unstim
## ENSG00000000003.14          1.543155     -4.8385323        -4.3356113
## ENSG00000000419.12          5.689621      3.9848349         5.2208947
## ENSG00000000457.14          4.256567      0.0194487         1.2281570
## ENSG00000000460.17          2.992908      1.5708586        -0.1866772
## ENSG00000000938.13          6.696176      6.8219094         4.5067390
## ENSG00000000971.15          2.203668     -4.8385323         0.7779225
##                    18-079-SVZ-IFNy 18-079-SVZ-LPS 18-079-SVZ-R848
## ENSG00000000003.14    -0.729208736       1.407764      -2.9389828
## ENSG00000000419.12     5.069533056       4.183057       4.4214985
## ENSG00000000457.14     3.677781369       2.856258       3.4715392
## ENSG00000000460.17     1.645227998       3.440317       2.5072734
## ENSG00000000938.13     7.168435071       7.438077       7.2355268
## ENSG00000000971.15     0.007756858      -3.877639       0.1199109
##                    18-079-SVZ-TNFa 18-105-GFM-DEX 18-105-GFM-LPS
## ENSG00000000003.14       -2.095096      0.3214363     -1.4022226
## ENSG00000000419.12        5.317121      4.8953153      5.4328989
## ENSG00000000457.14        3.771317      3.9305833      3.6404732
## ENSG00000000460.17        1.760229      2.4620146      0.2012902
## ENSG00000000938.13        7.371830      8.9244570      7.8438892
## ENSG00000000971.15        1.074829     -3.7083111     -3.1677574
##                    18-105-GFM-unstim 18-105-GTS-LPS 18-105-GTS-unstim
## ENSG00000000003.14         -4.047389      0.9098435         0.7367619
## ENSG00000000419.12          5.488534      3.7171984         4.8242248
## ENSG00000000457.14          3.157703      3.2317716         5.4916495
## ENSG00000000460.17          2.294478      0.9098435         0.7367619
## ENSG00000000938.13          7.911767      5.4334055         6.8452864
## ENSG00000000971.15         -2.462427      0.9098435         0.7367619
##                    18-105-THA-LPS 18-105-THA-unstim 18-112-GFM-ATP
## ENSG00000000003.14      -2.830266         -2.174513      -6.152824
## ENSG00000000419.12       4.909852          5.279232       5.760440
## ENSG00000000457.14       3.549424          3.891278       3.232823
## ENSG00000000460.17       1.750603          3.041464       2.638795
## ENSG00000000938.13       7.004205          6.968772       7.759785
## ENSG00000000971.15      -1.064731         -1.231097      -1.629262
##                    18-112-GFM-DEX 18-112-GFM-IFNy 18-112-GFM-LPS
## ENSG00000000003.14      -3.887114       -4.007834     -1.8198123
## ENSG00000000419.12       5.290305        5.182814      5.3556679
## ENSG00000000457.14       4.047166        3.901579      3.5272233
## ENSG00000000460.17       2.540269        2.498586      1.4644385
## ENSG00000000938.13       8.721372        7.874427      7.8182213
## ENSG00000000971.15      -3.887114       -5.592796     -0.5974199
##                    18-112-GFM-unstim 18-112-GTS-LPS 18-112-GTS-unstim
## ENSG00000000003.14         -1.213110      -4.925151         0.9812786
## ENSG00000000419.12          5.493262       3.984742         4.0085287
## ENSG00000000457.14          4.134859       3.392262         3.1700979
## ENSG00000000460.17          2.692406       1.789095         1.6064302
## ENSG00000000938.13          7.690198       8.266679         7.8952836
## ENSG00000000971.15         -5.605428      -4.925151        -4.9013644
##                    18-118-GFM-IL4 MG-01-RNA MG-02-RNA MG-02-SVZ-RNA
## ENSG00000000003.14     -0.3497012 -5.444794 -3.882750      1.133597
## ENSG00000000419.12      6.3085103  4.770739  5.559503      3.741778
## ENSG00000000457.14      3.7377617  3.203169  3.436772      3.829315
## ENSG00000000460.17      1.2352613  3.390815  3.573399      1.788340
## ENSG00000000938.13      5.3227242  8.116614  8.908888      9.473171
## ENSG00000000971.15      3.1097304  1.921529  1.102143      2.584881
##                    MG-03-MGF-RNA MG-03-RNA MG-04-SVZ-RNA MG-05-MGF-RNA
## ENSG00000000003.14     1.0633670 -1.684371     -4.434592    -0.9414922
## ENSG00000000419.12     3.7001685  5.071730      3.286507     3.8315263
## ENSG00000000457.14     1.2949793  3.251431      2.953770     3.4271399
## ENSG00000000460.17    -0.3068641  3.315574      2.032361     2.2285110
## ENSG00000000938.13     6.0333677  8.973976      8.415009     9.6204011
## ENSG00000000971.15    -1.1242600  1.027324     -1.627237     0.7989879
##                    MG-07-SVZ-RNA MG-08-CER-RNA MG-09-SVZ-RNA MG-12-CER-RNA
## ENSG00000000003.14      2.560521    -1.9328796      1.219647     -1.301719
## ENSG00000000419.12      4.182613     2.0915046      3.664432      4.243394
## ENSG00000000457.14      1.825971     0.2312045      3.287575      3.640760
## ENSG00000000460.17      1.255021    -1.9727723      2.788970      2.569670
## ENSG00000000938.13      6.422664     6.3828875      8.288259      8.909514
## ENSG00000000971.15     -2.601367    -3.8073487     -2.312848      2.432470
##                    MG-12-MGF-RNA MG-12-SVZ-RNA MG-13-CER-RNA MG-14-CER-RNA
## ENSG00000000003.14      1.795203   -0.09444444      1.087928   -1.67151635
## ENSG00000000419.12      4.889179    4.41511065      4.510365    4.82403123
## ENSG00000000457.14      4.558233    4.28242215      1.515602    3.64105947
## ENSG00000000460.17      3.281422    4.17036997      2.010463    2.35160249
## ENSG00000000938.13      8.053316    7.79565091      7.602130    8.37193163
## ENSG00000000971.15      4.102258   -2.52740385      2.060272   -0.08655385
##                    MG-14-MGF-RNA MG-15-CER-RNA MG-15-MGF-RNA MG-15-SN-RNA
## ENSG00000000003.14    -2.6031116     -5.625067     -5.927748     1.255564
## ENSG00000000419.12     4.5567598      3.712555      4.857705     4.062919
## ENSG00000000457.14     3.6711501      2.825732      1.290840     2.840527
## ENSG00000000460.17     2.8942271      1.785172      3.392060     3.577492
## ENSG00000000938.13     8.4503295      8.938308      7.585610     6.810153
## ENSG00000000971.15     0.4721765     -5.625067     -3.605820     5.343027
##                    MG-15-SVZ-RNA MG-16-CER-RNA MG-16-MGF-RNA MG-17-HIP-RNA
## ENSG00000000003.14     -4.305009    -1.1327001    0.04650904      1.877853
## ENSG00000000419.12     -1.135084     2.3420794    4.29443655      4.897196
## ENSG00000000457.14     -2.720046     1.6987003    4.86612857      1.837745
## ENSG00000000460.17     -2.720046    -5.2201630    3.36141269      2.530558
## ENSG00000000938.13      2.989612     0.5077575    6.44616844      3.964918
## ENSG00000000971.15     -2.720046    -5.2201630    1.08045637     -2.397425
##                    MG-17-MGF-RNA MG-17-SN-RNA MG-17-SVZ-RNA MG-18-HIP-RNA
## ENSG00000000003.14     2.2553655    -3.525890      2.189478     -1.624407
## ENSG00000000419.12     4.7126455     3.840432      4.086757      3.761024
## ENSG00000000457.14     4.3871241     3.982803      3.915458      4.520265
## ENSG00000000460.17     3.7283504     4.400228      4.772216      4.816036
## ENSG00000000938.13     8.8107090     6.483939      6.021662      6.286885
## ENSG00000000971.15     0.9294903    -5.110852     -5.782066     -2.071866
##                    MG-18-SN-RNA MG-18-SVZ-RNA MG-19-HIP-RNA MG-19-MGF-RNA
## ENSG00000000003.14    -1.789831     -1.120839     -1.112077     -2.426758
## ENSG00000000419.12     3.947954      3.993822      4.396774      4.859965
## ENSG00000000457.14     3.915996      3.900536      3.887502      4.365391
## ENSG00000000460.17     3.889930      4.478023      3.958713      4.399536
## ENSG00000000938.13     6.370498      5.919047      6.154085      5.903519
## ENSG00000000971.15    -2.927335     -5.208302     -2.211613     -1.774681
##                    MG-19-SN-RNA MG-20-GFM-RNA MG-20-MGF-RNA MG-20-SN-RNA
## ENSG00000000003.14   -0.7069354      2.136036     -2.025697   -6.4155339
## ENSG00000000419.12    4.8350051      4.274293      4.364711    4.9535181
## ENSG00000000457.14    4.0807328      4.141828      3.821911    0.5783668
## ENSG00000000460.17    3.8483144      3.205636      3.853519    0.2360919
## ENSG00000000938.13    7.0347044      7.833603      6.835390    5.5777583
## ENSG00000000971.15   -5.9923376      2.322449     -5.195622    1.6533518
##                    MG-21-MGF-RNA MG-22-HIP-RNA MG-22-MGF-RNA MG-22-SN-RNA
## ENSG00000000003.14    -0.4229107    0.07132644   -5.65949773    -5.951899
## ENSG00000000419.12     4.5269499    3.88502846    4.14301863     4.253894
## ENSG00000000457.14     4.0537121    3.78692157    4.66276846     2.111064
## ENSG00000000460.17     3.2714771    3.95774411    4.92354742     3.110363
## ENSG00000000938.13     9.1578956    5.75002437    6.56299532     3.690152
## ENSG00000000971.15    -2.6792505   -1.13924055   -0.04478789    -5.951899
##                    MG-23-HIP-RNA MG-23-MGF-RNA MG-23-SN-RNA MG-24-HIP-RNA
## ENSG00000000003.14      1.482659    -5.2252485    -6.330746    -0.5052229
## ENSG00000000419.12      3.540535     4.1079069     4.096567     2.7782311
## ENSG00000000457.14      3.873737     4.3208743     1.046898     0.2268749
## ENSG00000000460.17      3.043854     3.4128253     1.656234    -2.0660897
## ENSG00000000938.13      6.604238     8.2350794     5.178534     6.2699109
## ENSG00000000971.15     -5.565374    -0.5813923    -6.330746    -4.7531504
##                    MG-24-MGF-RNA MG-24-SN-RNA MG-25-HIP-RNA MG-25-MGF-RNA
## ENSG00000000003.14     -6.643034    -5.708108     -5.619631     -3.849725
## ENSG00000000419.12      3.366795     4.770662      4.043927      3.893988
## ENSG00000000457.14     -5.058071     2.749109      4.013764      4.190949
## ENSG00000000460.17     -6.643034     1.804119      3.483080      4.077145
## ENSG00000000938.13      3.253299     6.594245      6.591345      9.151860
## ENSG00000000971.15     -6.643034    -5.708108     -5.619631     -3.112759
##                    MG-26-DLPFC-RNA MG-26-OCC-CORTEX-RNA MG-26-SN-RNA
## ENSG00000000003.14      -4.8895973            -5.352755    -5.165192
## ENSG00000000419.12       4.7560611             4.413773     3.848828
## ENSG00000000457.14       3.3903382             2.682868     3.250296
## ENSG00000000460.17       0.2470863             3.690545     4.050486
## ENSG00000000938.13       7.1331173             8.867850     6.895841
## ENSG00000000971.15      -4.8895973            -5.352755    -3.580230
## [1] TRUE

Removal of samples that did not meet criteria QC: 496 samples in total

# summary of the PCA; up to

## Importance of components:
##                            PC1     PC2      PC3      PC4      PC5      PC6
## Standard deviation     82.9795 43.4155 38.72416 28.43479 25.06897 21.89329
## Proportion of Variance  0.3697  0.1012  0.08051  0.04341  0.03374  0.02574
## Cumulative Proportion   0.3697  0.4709  0.55141  0.59482  0.62857  0.65430
##                             PC7      PC8      PC9     PC10     PC11     PC12
## Standard deviation     17.91296 16.86858 14.93215 13.83319 12.60483 11.74909
## Proportion of Variance  0.01723  0.01528  0.01197  0.01027  0.00853  0.00741
## Cumulative Proportion   0.67153  0.68681  0.69878  0.70905  0.71758  0.72500
##                            PC13     PC14     PC15    PC16    PC17    PC18
## Standard deviation     11.38956 10.89235 10.45967 9.72085 9.42511 9.21285
## Proportion of Variance  0.00696  0.00637  0.00587 0.00507 0.00477 0.00456
## Cumulative Proportion   0.73196  0.73833  0.74420 0.74928 0.75405 0.75860
##                           PC19   PC20    PC21    PC22    PC23    PC24    PC25
## Standard deviation     9.19104 8.7402 8.46646 8.34265 8.26467 8.16908 7.94783
## Proportion of Variance 0.00454 0.0041 0.00385 0.00374 0.00367 0.00358 0.00339
## Cumulative Proportion  0.76314 0.7672 0.77109 0.77483 0.77850 0.78208 0.78547
##                           PC26    PC27   PC28    PC29    PC30    PC31    PC32
## Standard deviation     7.90979 7.72842 7.6005 7.53782 7.44804 7.36159 7.27359
## Proportion of Variance 0.00336 0.00321 0.0031 0.00305 0.00298 0.00291 0.00284
## Cumulative Proportion  0.78883 0.79204 0.7951 0.79819 0.80117 0.80408 0.80692
##                          PC33    PC34    PC35    PC36    PC37    PC38    PC39
## Standard deviation     7.2162 7.08461 7.01060 6.90408 6.75989 6.72682 6.61557
## Proportion of Variance 0.0028 0.00269 0.00264 0.00256 0.00245 0.00243 0.00235
## Cumulative Proportion  0.8097 0.81241 0.81505 0.81761 0.82006 0.82249 0.82484
##                           PC40    PC41    PC42   PC43    PC44    PC45    PC46
## Standard deviation     6.51989 6.44997 6.43496 6.2476 6.09336 6.03941 5.97528
## Proportion of Variance 0.00228 0.00223 0.00222 0.0021 0.00199 0.00196 0.00192
## Cumulative Proportion  0.82712 0.82935 0.83158 0.8337 0.83567 0.83763 0.83954
##                          PC47    PC48    PC49   PC50    PC51   PC52    PC53
## Standard deviation     5.9513 5.74025 5.68238 5.6290 5.56194 5.4536 5.42128
## Proportion of Variance 0.0019 0.00177 0.00173 0.0017 0.00166 0.0016 0.00158
## Cumulative Proportion  0.8414 0.84321 0.84495 0.8467 0.84831 0.8499 0.85148
##                           PC54    PC55    PC56    PC57    PC58    PC59    PC60
## Standard deviation     5.33532 5.26240 5.25372 5.17929 5.14110 5.07394 5.04722
## Proportion of Variance 0.00153 0.00149 0.00148 0.00144 0.00142 0.00138 0.00137
## Cumulative Proportion  0.85301 0.85450 0.85598 0.85742 0.85884 0.86022 0.86159
##                           PC61    PC62   PC63    PC64    PC65    PC66    PC67
## Standard deviation     5.01029 4.97609 4.9141 4.89457 4.87622 4.83265 4.75208
## Proportion of Variance 0.00135 0.00133 0.0013 0.00129 0.00128 0.00125 0.00121
## Cumulative Proportion  0.86294 0.86427 0.8656 0.86685 0.86813 0.86938 0.87059
##                           PC68    PC69    PC70    PC71    PC72    PC73    PC74
## Standard deviation     4.67624 4.66878 4.61963 4.59842 4.55863 4.54007 4.48871
## Proportion of Variance 0.00117 0.00117 0.00115 0.00114 0.00112 0.00111 0.00108
## Cumulative Proportion  0.87177 0.87294 0.87408 0.87522 0.87633 0.87744 0.87852
##                           PC75    PC76    PC77    PC78    PC79    PC80    PC81
## Standard deviation     4.47242 4.37200 4.35527 4.32779 4.28948 4.23010 4.20585
## Proportion of Variance 0.00107 0.00103 0.00102 0.00101 0.00099 0.00096 0.00095
## Cumulative Proportion  0.87960 0.88062 0.88164 0.88265 0.88364 0.88460 0.88555
##                           PC82    PC83    PC84    PC85    PC86    PC87    PC88
## Standard deviation     4.14588 4.12528 4.11290 4.07955 4.04557 4.02910 4.00645
## Proportion of Variance 0.00092 0.00091 0.00091 0.00089 0.00088 0.00087 0.00086
## Cumulative Proportion  0.88647 0.88738 0.88829 0.88918 0.89006 0.89093 0.89180
##                           PC89    PC90    PC91    PC92    PC93   PC94   PC95
## Standard deviation     3.97608 3.97073 3.96299 3.93906 3.90231 3.8636 3.8513
## Proportion of Variance 0.00085 0.00085 0.00084 0.00083 0.00082 0.0008 0.0008
## Cumulative Proportion  0.89265 0.89349 0.89434 0.89517 0.89599 0.8968 0.8976
##                           PC96    PC97    PC98    PC99   PC100   PC101   PC102
## Standard deviation     3.82108 3.80595 3.80100 3.76142 3.73379 3.72571 3.70036
## Proportion of Variance 0.00078 0.00078 0.00078 0.00076 0.00075 0.00075 0.00074
## Cumulative Proportion  0.89837 0.89915 0.89992 0.90068 0.90143 0.90217 0.90291
##                          PC103   PC104   PC105  PC106   PC107   PC108   PC109
## Standard deviation     3.67186 3.64649 3.63598 3.6087 3.57576 3.56146 3.54296
## Proportion of Variance 0.00072 0.00071 0.00071 0.0007 0.00069 0.00068 0.00067
## Cumulative Proportion  0.90363 0.90435 0.90506 0.9058 0.90644 0.90712 0.90780
##                          PC110   PC111   PC112   PC113   PC114   PC115   PC116
## Standard deviation     3.53123 3.49244 3.48521 3.45541 3.44831 3.41202 3.39692
## Proportion of Variance 0.00067 0.00065 0.00065 0.00064 0.00064 0.00063 0.00062
## Cumulative Proportion  0.90847 0.90912 0.90977 0.91042 0.91105 0.91168 0.91230
##                          PC117   PC118  PC119   PC120   PC121   PC122   PC123
## Standard deviation     3.38745 3.37088 3.3555 3.32813 3.30836 3.30291 3.27969
## Proportion of Variance 0.00062 0.00061 0.0006 0.00059 0.00059 0.00059 0.00058
## Cumulative Proportion  0.91291 0.91352 0.9141 0.91472 0.91531 0.91590 0.91648
##                          PC124   PC125   PC126   PC127   PC128   PC129   PC130
## Standard deviation     3.27456 3.25778 3.24072 3.22912 3.20417 3.20187 3.16144
## Proportion of Variance 0.00058 0.00057 0.00056 0.00056 0.00055 0.00055 0.00054
## Cumulative Proportion  0.91705 0.91762 0.91818 0.91874 0.91930 0.91985 0.92038
##                          PC131   PC132   PC133   PC134   PC135   PC136  PC137
## Standard deviation     3.14879 3.13372 3.11729 3.10956 3.07677 3.07374 3.0650
## Proportion of Variance 0.00053 0.00053 0.00052 0.00052 0.00051 0.00051 0.0005
## Cumulative Proportion  0.92092 0.92144 0.92196 0.92248 0.92299 0.92350 0.9240
##                         PC138   PC139   PC140   PC141   PC142   PC143   PC144
## Standard deviation     3.0397 3.01755 3.01322 3.00136 2.99237 2.98335 2.97064
## Proportion of Variance 0.0005 0.00049 0.00049 0.00048 0.00048 0.00048 0.00047
## Cumulative Proportion  0.9245 0.92499 0.92548 0.92596 0.92644 0.92692 0.92739
##                          PC145   PC146   PC147   PC148   PC149   PC150   PC151
## Standard deviation     2.94901 2.94716 2.93401 2.91689 2.91370 2.90851 2.90106
## Proportion of Variance 0.00047 0.00047 0.00046 0.00046 0.00046 0.00045 0.00045
## Cumulative Proportion  0.92786 0.92832 0.92879 0.92924 0.92970 0.93015 0.93061
##                          PC152   PC153   PC154   PC155   PC156   PC157   PC158
## Standard deviation     2.87181 2.85991 2.85792 2.84997 2.84659 2.84060 2.81328
## Proportion of Variance 0.00044 0.00044 0.00044 0.00044 0.00044 0.00043 0.00042
## Cumulative Proportion  0.93105 0.93149 0.93193 0.93236 0.93280 0.93323 0.93366
##                          PC159   PC160   PC161   PC162   PC163   PC164   PC165
## Standard deviation     2.80252 2.79572 2.78412 2.77345 2.76616 2.75344 2.74847
## Proportion of Variance 0.00042 0.00042 0.00042 0.00041 0.00041 0.00041 0.00041
## Cumulative Proportion  0.93408 0.93450 0.93491 0.93533 0.93574 0.93614 0.93655
##                         PC166  PC167   PC168   PC169   PC170   PC171   PC172
## Standard deviation     2.7392 2.7274 2.71153 2.69656 2.69248 2.67855 2.66295
## Proportion of Variance 0.0004 0.0004 0.00039 0.00039 0.00039 0.00039 0.00038
## Cumulative Proportion  0.9369 0.9374 0.93775 0.93814 0.93853 0.93891 0.93929
##                          PC173   PC174   PC175   PC176   PC177   PC178   PC179
## Standard deviation     2.65652 2.64882 2.64763 2.64141 2.63950 2.62242 2.61811
## Proportion of Variance 0.00038 0.00038 0.00038 0.00037 0.00037 0.00037 0.00037
## Cumulative Proportion  0.93967 0.94005 0.94042 0.94080 0.94117 0.94154 0.94191
##                          PC180   PC181   PC182   PC183   PC184   PC185   PC186
## Standard deviation     2.60891 2.60564 2.59720 2.58754 2.58123 2.56722 2.56408
## Proportion of Variance 0.00037 0.00036 0.00036 0.00036 0.00036 0.00035 0.00035
## Cumulative Proportion  0.94228 0.94264 0.94300 0.94336 0.94372 0.94407 0.94443
##                          PC187   PC188   PC189   PC190   PC191   PC192   PC193
## Standard deviation     2.54755 2.54272 2.53693 2.52110 2.51443 2.50176 2.49610
## Proportion of Variance 0.00035 0.00035 0.00035 0.00034 0.00034 0.00034 0.00033
## Cumulative Proportion  0.94477 0.94512 0.94547 0.94581 0.94615 0.94648 0.94682
##                          PC194   PC195   PC196   PC197   PC198   PC199   PC200
## Standard deviation     2.48761 2.48630 2.47353 2.46575 2.46547 2.46203 2.44749
## Proportion of Variance 0.00033 0.00033 0.00033 0.00033 0.00033 0.00033 0.00032
## Cumulative Proportion  0.94715 0.94748 0.94781 0.94814 0.94846 0.94879 0.94911
##                          PC201   PC202   PC203   PC204   PC205   PC206   PC207
## Standard deviation     2.44232 2.42524 2.42155 2.41327 2.40410 2.40045 2.39228
## Proportion of Variance 0.00032 0.00032 0.00031 0.00031 0.00031 0.00031 0.00031
## Cumulative Proportion  0.94943 0.94975 0.95006 0.95038 0.95069 0.95099 0.95130
##                          PC208  PC209  PC210  PC211  PC212  PC213   PC214
## Standard deviation     2.38676 2.3772 2.3659 2.3640 2.3516 2.3493 2.34192
## Proportion of Variance 0.00031 0.0003 0.0003 0.0003 0.0003 0.0003 0.00029
## Cumulative Proportion  0.95161 0.9519 0.9522 0.9525 0.9528 0.9531 0.95340
##                          PC215   PC216   PC217   PC218   PC219   PC220   PC221
## Standard deviation     2.33815 2.32761 2.32602 2.32344 2.31705 2.30630 2.30302
## Proportion of Variance 0.00029 0.00029 0.00029 0.00029 0.00029 0.00029 0.00028
## Cumulative Proportion  0.95369 0.95398 0.95427 0.95456 0.95485 0.95514 0.95542
##                          PC222   PC223   PC224   PC225   PC226   PC227   PC228
## Standard deviation     2.29494 2.28949 2.27964 2.27914 2.27262 2.27049 2.26063
## Proportion of Variance 0.00028 0.00028 0.00028 0.00028 0.00028 0.00028 0.00027
## Cumulative Proportion  0.95571 0.95599 0.95627 0.95655 0.95682 0.95710 0.95737
##                          PC229   PC230   PC231   PC232   PC233   PC234   PC235
## Standard deviation     2.25362 2.24713 2.24320 2.23783 2.23328 2.23135 2.22494
## Proportion of Variance 0.00027 0.00027 0.00027 0.00027 0.00027 0.00027 0.00027
## Cumulative Proportion  0.95765 0.95792 0.95819 0.95846 0.95872 0.95899 0.95926
##                          PC236   PC237   PC238   PC239   PC240   PC241   PC242
## Standard deviation     2.22070 2.21429 2.20643 2.20139 2.19659 2.19142 2.18765
## Proportion of Variance 0.00026 0.00026 0.00026 0.00026 0.00026 0.00026 0.00026
## Cumulative Proportion  0.95952 0.95979 0.96005 0.96031 0.96057 0.96082 0.96108
##                          PC243   PC244   PC245   PC246   PC247   PC248   PC249
## Standard deviation     2.18255 2.17629 2.17102 2.16925 2.15940 2.15753 2.15300
## Proportion of Variance 0.00026 0.00025 0.00025 0.00025 0.00025 0.00025 0.00025
## Cumulative Proportion  0.96134 0.96159 0.96184 0.96210 0.96235 0.96260 0.96285
##                          PC250   PC251   PC252   PC253   PC254   PC255   PC256
## Standard deviation     2.15245 2.14408 2.13896 2.13529 2.13022 2.12613 2.12188
## Proportion of Variance 0.00025 0.00025 0.00025 0.00024 0.00024 0.00024 0.00024
## Cumulative Proportion  0.96309 0.96334 0.96359 0.96383 0.96408 0.96432 0.96456
##                          PC257   PC258   PC259   PC260   PC261   PC262   PC263
## Standard deviation     2.11674 2.11184 2.10555 2.10231 2.09442 2.08321 2.08164
## Proportion of Variance 0.00024 0.00024 0.00024 0.00024 0.00024 0.00023 0.00023
## Cumulative Proportion  0.96480 0.96504 0.96528 0.96552 0.96575 0.96598 0.96622
##                          PC264   PC265   PC266   PC267   PC268   PC269   PC270
## Standard deviation     2.07831 2.07722 2.07396 2.06682 2.06060 2.05420 2.05159
## Proportion of Variance 0.00023 0.00023 0.00023 0.00023 0.00023 0.00023 0.00023
## Cumulative Proportion  0.96645 0.96668 0.96691 0.96714 0.96737 0.96759 0.96782
##                          PC271   PC272   PC273   PC274   PC275   PC276   PC277
## Standard deviation     2.04489 2.04048 2.03759 2.03429 2.02949 2.02708 2.01828
## Proportion of Variance 0.00022 0.00022 0.00022 0.00022 0.00022 0.00022 0.00022
## Cumulative Proportion  0.96805 0.96827 0.96849 0.96871 0.96894 0.96916 0.96937
##                          PC278   PC279   PC280   PC281   PC282   PC283   PC284
## Standard deviation     2.01431 2.01207 2.00928 2.00604 1.99801 1.99394 1.98896
## Proportion of Variance 0.00022 0.00022 0.00022 0.00022 0.00021 0.00021 0.00021
## Cumulative Proportion  0.96959 0.96981 0.97003 0.97024 0.97046 0.97067 0.97088
##                          PC285   PC286   PC287   PC288   PC289   PC290   PC291
## Standard deviation     1.98313 1.97928 1.97424 1.96623 1.96437 1.95750 1.95624
## Proportion of Variance 0.00021 0.00021 0.00021 0.00021 0.00021 0.00021 0.00021
## Cumulative Proportion  0.97109 0.97130 0.97151 0.97172 0.97193 0.97213 0.97234
##                         PC292  PC293  PC294  PC295  PC296  PC297  PC298  PC299
## Standard deviation     1.9527 1.9503 1.9481 1.9404 1.9397 1.9345 1.9292 1.9274
## Proportion of Variance 0.0002 0.0002 0.0002 0.0002 0.0002 0.0002 0.0002 0.0002
## Cumulative Proportion  0.9725 0.9728 0.9729 0.9731 0.9734 0.9736 0.9738 0.9740
##                         PC300  PC301  PC302  PC303   PC304   PC305   PC306
## Standard deviation     1.9192 1.9184 1.9106 1.9071 1.90082 1.89513 1.89156
## Proportion of Variance 0.0002 0.0002 0.0002 0.0002 0.00019 0.00019 0.00019
## Cumulative Proportion  0.9741 0.9744 0.9746 0.9747 0.97494 0.97513 0.97532
##                          PC307   PC308   PC309   PC310   PC311   PC312   PC313
## Standard deviation     1.88745 1.88369 1.87887 1.87545 1.87166 1.86974 1.86813
## Proportion of Variance 0.00019 0.00019 0.00019 0.00019 0.00019 0.00019 0.00019
## Cumulative Proportion  0.97551 0.97570 0.97589 0.97608 0.97627 0.97646 0.97665
##                          PC314   PC315   PC316   PC317   PC318   PC319   PC320
## Standard deviation     1.86286 1.86242 1.85766 1.85447 1.85066 1.84607 1.84102
## Proportion of Variance 0.00019 0.00019 0.00019 0.00018 0.00018 0.00018 0.00018
## Cumulative Proportion  0.97683 0.97702 0.97720 0.97739 0.97757 0.97775 0.97794
##                          PC321   PC322   PC323   PC324   PC325   PC326   PC327
## Standard deviation     1.84041 1.83798 1.83053 1.82713 1.82298 1.81486 1.81122
## Proportion of Variance 0.00018 0.00018 0.00018 0.00018 0.00018 0.00018 0.00018
## Cumulative Proportion  0.97812 0.97830 0.97848 0.97866 0.97884 0.97901 0.97919
##                          PC328   PC329   PC330   PC331   PC332   PC333   PC334
## Standard deviation     1.81062 1.80633 1.80225 1.79790 1.79677 1.79514 1.78791
## Proportion of Variance 0.00018 0.00018 0.00017 0.00017 0.00017 0.00017 0.00017
## Cumulative Proportion  0.97937 0.97954 0.97972 0.97989 0.98006 0.98024 0.98041
##                          PC335   PC336   PC337   PC338   PC339   PC340   PC341
## Standard deviation     1.78535 1.78336 1.77916 1.77421 1.77190 1.76746 1.76174
## Proportion of Variance 0.00017 0.00017 0.00017 0.00017 0.00017 0.00017 0.00017
## Cumulative Proportion  0.98058 0.98075 0.98092 0.98109 0.98126 0.98142 0.98159
##                          PC342   PC343   PC344   PC345   PC346   PC347   PC348
## Standard deviation     1.76031 1.75588 1.75407 1.74745 1.74666 1.74249 1.74133
## Proportion of Variance 0.00017 0.00017 0.00017 0.00016 0.00016 0.00016 0.00016
## Cumulative Proportion  0.98176 0.98192 0.98209 0.98225 0.98242 0.98258 0.98274
##                          PC349   PC350   PC351   PC352   PC353   PC354   PC355
## Standard deviation     1.73481 1.73347 1.72870 1.72773 1.71955 1.71766 1.71140
## Proportion of Variance 0.00016 0.00016 0.00016 0.00016 0.00016 0.00016 0.00016
## Cumulative Proportion  0.98290 0.98307 0.98323 0.98339 0.98354 0.98370 0.98386
##                          PC356   PC357   PC358   PC359   PC360   PC361   PC362
## Standard deviation     1.70968 1.70678 1.70616 1.70045 1.69860 1.69391 1.69174
## Proportion of Variance 0.00016 0.00016 0.00016 0.00016 0.00015 0.00015 0.00015
## Cumulative Proportion  0.98402 0.98417 0.98433 0.98449 0.98464 0.98479 0.98495
##                          PC363   PC364   PC365   PC366   PC367   PC368   PC369
## Standard deviation     1.68442 1.68348 1.67878 1.67492 1.67232 1.66921 1.66583
## Proportion of Variance 0.00015 0.00015 0.00015 0.00015 0.00015 0.00015 0.00015
## Cumulative Proportion  0.98510 0.98525 0.98540 0.98555 0.98570 0.98585 0.98600
##                          PC370   PC371   PC372   PC373   PC374   PC375   PC376
## Standard deviation     1.65987 1.65971 1.65205 1.64991 1.64807 1.64477 1.64227
## Proportion of Variance 0.00015 0.00015 0.00015 0.00015 0.00015 0.00015 0.00014
## Cumulative Proportion  0.98615 0.98630 0.98645 0.98659 0.98674 0.98688 0.98703
##                          PC377   PC378   PC379   PC380   PC381   PC382   PC383
## Standard deviation     1.64073 1.63537 1.63168 1.63049 1.62775 1.62531 1.62029
## Proportion of Variance 0.00014 0.00014 0.00014 0.00014 0.00014 0.00014 0.00014
## Cumulative Proportion  0.98717 0.98732 0.98746 0.98760 0.98774 0.98789 0.98803
##                          PC384   PC385   PC386   PC387   PC388   PC389   PC390
## Standard deviation     1.61321 1.60940 1.60472 1.60266 1.60023 1.59636 1.59428
## Proportion of Variance 0.00014 0.00014 0.00014 0.00014 0.00014 0.00014 0.00014
## Cumulative Proportion  0.98817 0.98831 0.98844 0.98858 0.98872 0.98886 0.98899
##                          PC391   PC392   PC393   PC394   PC395   PC396   PC397
## Standard deviation     1.59165 1.58614 1.58304 1.58137 1.57697 1.57330 1.57192
## Proportion of Variance 0.00014 0.00014 0.00013 0.00013 0.00013 0.00013 0.00013
## Cumulative Proportion  0.98913 0.98926 0.98940 0.98953 0.98967 0.98980 0.98993
##                          PC398   PC399   PC400   PC401   PC402   PC403   PC404
## Standard deviation     1.57095 1.56448 1.56028 1.55722 1.55495 1.54972 1.54926
## Proportion of Variance 0.00013 0.00013 0.00013 0.00013 0.00013 0.00013 0.00013
## Cumulative Proportion  0.99006 0.99019 0.99033 0.99046 0.99059 0.99071 0.99084
##                          PC405   PC406   PC407   PC408   PC409   PC410   PC411
## Standard deviation     1.54614 1.54042 1.53538 1.52883 1.52745 1.52263 1.52122
## Proportion of Variance 0.00013 0.00013 0.00013 0.00013 0.00013 0.00012 0.00012
## Cumulative Proportion  0.99097 0.99110 0.99123 0.99135 0.99148 0.99160 0.99173
##                          PC412   PC413   PC414   PC415   PC416   PC417   PC418
## Standard deviation     1.51436 1.51052 1.50754 1.50249 1.49899 1.49611 1.49414
## Proportion of Variance 0.00012 0.00012 0.00012 0.00012 0.00012 0.00012 0.00012
## Cumulative Proportion  0.99185 0.99197 0.99209 0.99221 0.99233 0.99245 0.99257
##                          PC419   PC420   PC421   PC422   PC423   PC424   PC425
## Standard deviation     1.49213 1.48359 1.48289 1.48087 1.47553 1.47014 1.46768
## Proportion of Variance 0.00012 0.00012 0.00012 0.00012 0.00012 0.00012 0.00012
## Cumulative Proportion  0.99269 0.99281 0.99293 0.99305 0.99317 0.99328 0.99340
##                          PC426   PC427   PC428   PC429   PC430   PC431   PC432
## Standard deviation     1.46411 1.46227 1.45956 1.45544 1.45412 1.44819 1.44337
## Proportion of Variance 0.00012 0.00011 0.00011 0.00011 0.00011 0.00011 0.00011
## Cumulative Proportion  0.99351 0.99363 0.99374 0.99385 0.99397 0.99408 0.99419
##                          PC433   PC434   PC435   PC436   PC437   PC438   PC439
## Standard deviation     1.44173 1.43600 1.43416 1.42627 1.41927 1.41713 1.41544
## Proportion of Variance 0.00011 0.00011 0.00011 0.00011 0.00011 0.00011 0.00011
## Cumulative Proportion  0.99430 0.99442 0.99453 0.99463 0.99474 0.99485 0.99496
##                          PC440   PC441   PC442   PC443  PC444  PC445  PC446
## Standard deviation     1.41247 1.40958 1.40363 1.40056 1.3974 1.3932 1.3910
## Proportion of Variance 0.00011 0.00011 0.00011 0.00011 0.0001 0.0001 0.0001
## Cumulative Proportion  0.99507 0.99517 0.99528 0.99538 0.9955 0.9956 0.9957
##                         PC447  PC448  PC449  PC450  PC451  PC452  PC453  PC454
## Standard deviation     1.3882 1.3826 1.3787 1.3768 1.3708 1.3701 1.3594 1.3577
## Proportion of Variance 0.0001 0.0001 0.0001 0.0001 0.0001 0.0001 0.0001 0.0001
## Cumulative Proportion  0.9958 0.9959 0.9960 0.9961 0.9962 0.9963 0.9964 0.9965
##                         PC455  PC456  PC457  PC458  PC459  PC460  PC461   PC462
## Standard deviation     1.3546 1.3510 1.3484 1.3419 1.3357 1.3316 1.3302 1.32791
## Proportion of Variance 0.0001 0.0001 0.0001 0.0001 0.0001 0.0001 0.0001 0.00009
## Cumulative Proportion  0.9966 0.9967 0.9968 0.9969 0.9970 0.9971 0.9972 0.99728
##                          PC463   PC464   PC465   PC466   PC467   PC468   PC469
## Standard deviation     1.32270 1.31722 1.31332 1.30827 1.30224 1.29950 1.29569
## Proportion of Variance 0.00009 0.00009 0.00009 0.00009 0.00009 0.00009 0.00009
## Cumulative Proportion  0.99737 0.99746 0.99756 0.99765 0.99774 0.99783 0.99792
##                          PC470   PC471   PC472   PC473   PC474   PC475   PC476
## Standard deviation     1.29351 1.28688 1.28112 1.27981 1.27214 1.27078 1.26857
## Proportion of Variance 0.00009 0.00009 0.00009 0.00009 0.00009 0.00009 0.00009
## Cumulative Proportion  0.99801 0.99810 0.99819 0.99828 0.99836 0.99845 0.99854
##                          PC477   PC478   PC479   PC480   PC481   PC482   PC483
## Standard deviation     1.26263 1.26008 1.25008 1.24439 1.24233 1.23246 1.22970
## Proportion of Variance 0.00009 0.00009 0.00008 0.00008 0.00008 0.00008 0.00008
## Cumulative Proportion  0.99862 0.99871 0.99879 0.99887 0.99896 0.99904 0.99912
##                          PC484   PC485   PC486   PC487   PC488   PC489   PC490
## Standard deviation     1.22696 1.22115 1.21291 1.20544 1.20145 1.18961 1.17458
## Proportion of Variance 0.00008 0.00008 0.00008 0.00008 0.00008 0.00008 0.00007
## Cumulative Proportion  0.99920 0.99928 0.99936 0.99944 0.99951 0.99959 0.99966
##                          PC491   PC492   PC493   PC494   PC495     PC496
## Standard deviation     1.16193 1.14665 1.14292 1.08014 1.05087 3.685e-14
## Proportion of Variance 0.00007 0.00007 0.00007 0.00006 0.00006 0.000e+00
## Cumulative Proportion  0.99974 0.99981 0.99988 0.99994 1.00000 1.000e+00
## [1] 1

#Heatmap with 20 PCS (including uncultured)

#Boxplot PC3: heatmap V3

#removal of uncultured samples (ununstim)

## [1] 454  38
## 
##      ATP      DEX     IFNy      IL4      LPS     R848     TNFa   unstim 
##        5       10       79        8      128       42       47      135 
## ununstim 
##       42

#heatmap with 20 PCs without cultured samples: 455 samples

#Boxplot PC16: heatmap V16

#Boxplot PC12: heatmap V12

PCA of 1 region: GFM

## [1] 158  38
## 
##  CC GFM GFS GTS SVZ THA 
##  41 158   3  68 131  53

PCA of 1 region: SVZ

## [1] 131  38
## 
##  CC GFM GFS GTS SVZ THA 
##  41 158   3  68 131  53

PCA without uncultured samples 1000 most variable genes

PCA without uncultured samples 500 most variable genes

Note that the echo = FALSE parameter was added to the code chunk to prevent printing of the R code that generated the plot.